IQ-TREE 2.0.3 built Dec 20 2020 Input file name: zf_4CXXC_R1_alignment6.fasta Type of analysis: tree reconstruction + ultrafast bootstrap (1000 replicates) Random seed number: 489026 REFERENCES ---------- To cite IQ-TREE please use: Bui Quang Minh, Heiko A. Schmidt, Olga Chernomor, Dominik Schrempf, Michael D. Woodhams, Arndt von Haeseler, and Robert Lanfear (2020) IQ-TREE 2: New models and efficient methods for phylogenetic inference in the genomic era. Mol. Biol. Evol., in press. https://doi.org/10.1093/molbev/msaa015 Since you used ultrafast bootstrap (UFBoot) please also cite: Diep Thi Hoang, Olga Chernomor, Arndt von Haeseler, Bui Quang Minh, and Le Sy Vinh (2018) UFBoot2: Improving the ultrafast bootstrap approximation. Mol. Biol. Evol., 35:518–522. https://doi.org/10.1093/molbev/msx281 SEQUENCE ALIGNMENT ------------------ Input data: 142 sequences with 754 amino-acid sites Number of constant sites: 403 (= 53.4483% of all sites) Number of invariant (constant or ambiguous constant) sites: 403 (= 53.4483% of all sites) Number of parsimony informative sites: 114 Number of distinct site patterns: 540 SUBSTITUTION PROCESS -------------------- Model of substitution: VT+R6 State frequencies: (model) Model of rate heterogeneity: FreeRate with 6 categories Site proportion and rates: (0.0606,0.0445) (0.0812,0.2416) (0.2146,0.5366) (0.2622,0.8503) (0.2650,1.3350) (0.1163,2.4570) Category Relative_rate Proportion 1 0.0445 0.0606 2 0.2416 0.0812 3 0.5366 0.2146 4 0.8503 0.2622 5 1.3350 0.2650 6 2.4570 0.1163 MAXIMUM LIKELIHOOD TREE ----------------------- Log-likelihood of the tree: -24719.2116 (s.e. 2062.2244) Unconstrained log-likelihood (without tree): -4558.1175 Number of free parameters (#branches + #model parameters): 291 Akaike information criterion (AIC) score: 50020.4232 Corrected Akaike information criterion (AICc) score: 50388.2674 Bayesian information criterion (BIC) score: 51366.4124 Total tree length (sum of branch lengths): 151.8985 Sum of internal branch lengths: 38.1594 (25.1217% of tree length) WARNING: 8 near-zero internal branches (<0.0013) should be treated with caution Such branches are denoted by '**' in the figure below WARNING: 1 too long branches (>9.8000) should be treated with caution! NOTE: Tree is UNROOTED although outgroup taxon 'XP_003058876zf_Micromonas' is drawn at root Numbers in parentheses are SH-aLRT support (%) / ultrafast bootstrap support (%) +--XP_003058876zf_Micromonas | | +--XP_007513594zf_Bathycoccus | +--| (0/51) | | +--GAQ86298zf_Klebsormidium +--| (85/64) | | +--NP_001142044zf_Zea | | +--| (85.2/95) | | | +--NP_195428zf_Arabidopsis | +--| (86.1/85) | +--XP_024375915zf_Physcomitrium | | +--XP_661910zf_Aspergillus | +--| (42/96) | | +--XP_002584966zf_Uncinocarpus | +--| (84.9/90) | | | +--XP_003717871zf_Pyricularia | | +--| (99.2/99) | | +--XP_956257zf_Neurospora | +--| (74.1/82) | | | +--------------------------------------------PCNA_NP_872590_Homo | | +--| (88.4/90) | | +**OQD72380zf_Penicillium | +**| (0/36) | | +-------XP_002542770zf_Uncinocarpus | +--| (58.4/76) | | +-------------------XP_002177665zf_Phaeodactylum | +--| (73.7/80) | | +------XP_021877942zf_Lobosporangium | +--| (80/74) | | | +--XP_024373437zf_Physcomitrium | | | +--| (23.4/84) | | | | | +---AQL06694zf_Zea | | | | +--| (87.6/85) | | | | +----AAC17616zf_Arabidopsis | | | +--| (59.4/97) | | | | +-------GAQ79928zf_Klebsormidium | | | +--| (62.3/81) | | | | +----XP_007508172zf_Bathycoccus | | | +--| (73.3/76) | | | | +-----XP_002683406zf_Naegleria | | | +--| (48.5/69) | | | | | +--XP_001427761zf_Paramecium | | | | | +--| (91.7/92) | | | | | | | +--XP_001443245zf_Paramecium | | | | | | +---| (88.9/93) | | | | | | +-----------CEL93640zf_Vitrella | | | | | +--| (85.4/92) | | | | | | +--CDW86779zf_Stylonychia | | | | | +--| (93.9/95) | | | | | | +----CDW80849zf_Stylonychia | | | | +--| (58.8/85) | | | | | +----------XP_019025386zf_Saitoella | | | | | +--| (75/92) | | | | | | +---XP_002295364zf_Thalassiosira | | | | +--| (71.9/79) | | | | +------XP_004368168zf_Acanthamoeba | | +--| (77.6/75) | | | +---XP_003293946zf_Dictyostelium | | +--| (94.9/97) | | +--XP_020434135zf_Heterostelium | +--| (97.1/75) | | | +----CEP01702zf_Plasmodiophora | | | +--| (71.1/62) | | | | | +--CEP03996zf_Plasmodiophora | | | | | +--| (68/89) | | | | | | | +--CEP03200zf_Plasmodiophora | | | | | | +--| (82.3/99) | | | | | | +--CEO94768zf_Plasmodiophora | | | | +--| (73.9/62) | | | | | +--CEO94376zf_Plasmodiophora | | | | | +--| (78/68) | | | | | | | +-----------XP_003293704zf_Dictyostelium | | | | | | | +--| (72.7/73) | | | | | | | | +---CDW77674zf_Stylonychia | | | | | | +--| (68.9/71) | | | | | | +----CDW72887zf_Stylonychia | | | | +--| (2/36) | | | | | +--CEO96987zf_Plasmodiophora | | | | +--| (97.9/96) | | | | +--CEP03930zf_Plasmodiophora | | | +--| (88.9/79) | | | | | +--CEO98828zf_Plasmodiophora | | | | | +--| (81/96) | | | | | | | +-----CEO97187_Plasmodiophora | | | | | | +--| (75.4/99) | | | | | | +--CEO95544zf_Plasmodiophora | | | | +--| (57/56) | | | | +--CEO97286zf_Plasmodiophora | | | +--| (72.2/64) | | | | | +------ORY84156zf_Leucosporidium | | | | +--| (40.4/58) | | | | +------GAX77805zf_Chlamydomonas | | | +--| (89.6/86) | | | | | +---------XP_005819930zf_Guillardia | | | | | +--| (79.9/78) | | | | | | | +**XP_020438860zf_Heterostelium | | | | | | +--| (91.3/99) | | | | | | +--XP_003294201zf_Dictyostelium | | | | +--| (77.9/73) | | | | +---XP_004344770zf_Acanthamoeba | | +--| (78.5/83) | | | +--------XP_004336244zf_Acanthamoeba | | +**| (0/51) | | +-----ORX94811zf_Basidiobolus | +--| (88.5/52) | | | +--XP_007331801zf_Agaricus | | | +--| (82.6/99) | | | | +--PBK88371zf_Armillaria | | | +-----| (96.7/100) | | | | +--XP_001834730zf_Coprinopsis | | | +--| (5.3/53) | | | | +-----XP_019002670zf_Kwoniella | | | +**| (0/49) | | | | | +----XP_001830053zf_Coprinopsis | | | | | +--| (78.9/99) | | | | | | +--XP_006460637zf_Agaricus | | | | +--| (91.9/97) | | | | +--PBK91410zf_Armillaria | | | +--| (69.6/58) | | | | +---GAO50750zf_Saitoella | | +--| (95.1/78) | | | +--XP_019003122zf_Kwoniella | | +--| (40.1/55) | | +----XP_011388187zf_Ustilago | +--| (44.1/26) | | | +--AAG00254zf_Arabidopsis | | | +--| (76.3/88) | | | | +--AQK52847zf_Zea | | +--| (89.8/62) | | +--GAQ86643zf_Klebsormidium | +--| (81.2/26) | | | +--KXS13106zf_Gonapodya | | +--| (79.6/33) | | +--CCG81269zf_Taphrina | +--| (64.7/23) | | | +------XP_018295218zf_Phycomyces | | | +--| (60.7/84) | | | | | +--ORX71196zf_Linderina | | | | +--| (31.5/67) | | | | +--PIA14937zf_Coemansia | | +--| (83.6/62) | | | +--ORX82853zf_Basidiobolus | | | +--| (83.3/99) | | | | | +--EXX51020zf_Rhizophagus | | | | +--| (34.9/71) | | | | +--KXS20547zf_Gonapodya | | +--| (0/55) | | +--KFH66104zf_Podila | +--| (89.4/28) | | | +-----XP_005791698zf_Emiliania | | | +------| (98.4/99) | | | | +-----KXS16402zf_Gonapodya | | +--| (73.8/88) | | | +--XP_024393821zf_Physcomitrium | | +--| (51.8/96) | | | +--XP_003056019zf_Micromonas | | | +--| (56.6/42) | | | | +--XP_003061568zf_Micromonas | | | +--| (21.5/35) | | | | +--GAX81623zf_ | | +--| (79.4/98) | | +--XP_007512509zf_Bathycoccus | +--| (49.7/33) | | | +--------ORY89976zf_Syncephalastrum | | +--| (90.3/59) | | +--XP_004340890zf_Acanthamoeba | +--| (96/66) | | | +--OCT95900zf_Xenopus | | | +--| (99.6/100) | | | | | +--CAF96519zf_Tetraodon | | | | | +--| (58.5/88) | | | | | | +--XP_011612425zf_Takifugu | | | | | +**| (0/84) | | | | | | +--XP_007548929zf_Poecilia | | | | | +--| (99.5/99) | | | | | | +--XP_022538370zf_Astyanax | | | | +--| (74.9/91) | | | | +--XP_018411700zf_Nanorana | | | +--| (80.8/88) | | | | | +--XP_005167472zf_Danio | | | | | +--| (90.4/98) | | | | | | | +--XP_007546543zf_Poecilia | | | | | | | +--| (42.4/41) | | | | | | | | | +**CAG09964zf_Tetraodon | | | | | | | | +--| (21.6/95) | | | | | | | | +--XP_011607948zf_Takifugu | | | | | | +--| (80.3/40) | | | | | | +**XP_007234924zf_Astyanax | | | | | +--| (90.4/89) | | | | | | | +--NP_001091283zf_Xenopus | | | | | | | +--| (37.4/84) | | | | | | | | +--XP_003225686zf_Anolis | | | | | | +**| (0/69) | | | | | | +--XP_007425803zf_Python | | | | | +**| (0/54) | | | | | | | +--XP_005300469zf_Chrysemys | | | | | | | +--| (77.3/95) | | | | | | | | | +**NP_114148zf_Homo | | | | | | | | +--| (98.3/100) | | | | | | | | +--AAH66169zf_Mus | | | | | | | +--| (86.7/93) | | | | | | | | | +--XP_040532940zf_Gallus | | | | | | | | +--| (89.2/100) | | | | | | | | +--XP_013816235zf_Apteryx | | | | | | +--| (71.2/79) | | | | | | +--XP_020376185zf_Rhincodon | | | | +--| (88.7/98) | | | | +--XP_018427964zf_Nanorana | | | +--| (83/88) | | | | +--XP_032821587zf_Petromyzon | | | +--| (84.7/87) | | | | | +--XP_018431819zf_Nanorana | | | | | +--| (94.9/100) | | | | | | +--NP_001090432zf_Xenopus | | | | | +--| (75.2/91) | | | | | | +--XP_008110846zf_Anolis | | | | | +--| (78/70) | | | | | | +--XP_007439779zf_Python | | | | | +--| (71.3/37) | | | | | | | +--XP_013796952zf_Apteryx | | | | | | +**| (0/88) | | | | | | +**NP_001026153zn_Gallus | | | | | +--| (77.2/66) | | | | | | +**XP_005290896zf_Chrysemys | | | | | +--| (74.7/52) | | | | | | | +--XP_007260759zf_Astyanax | | | | | | | +--| (9.7/75) | | | | | | | | +--XP_002665508zf_Danio | | | | | | +--| (99/96) | | | | | | | +--XP_011607165zf_Takifugu | | | | | | +--| (98.8/100) | | | | | | +--XP_007547606zn_Poecilia | | | | | +--| (92/61) | | | | | | | +--NP_061189zf_Homo | | | | | | +--| (8.8/91) | | | | | | +--NP_666152zf_Mus | | | | +--| (82.3/76) | | | | +--XP_020378518zf_Rhincodon | | | +--| (10.2/64) | | | | +--XP_009862216zf_Ciona | | | +--| (48.7/74) | | | | +--XP_035667388zf_Branchiostoma | | | +--| (84/86) | | | | | +--XP_013792150zf_Limulus | | | | +--| (94.3/95) | | | | | +--XP_014780310zf_Octopus | | | | | +--| (52.9/99) | | | | | | +--XP_011438013zf_Crassostrea | | | | +--| (76.8/87) | | | | +--XP_001626018zf_Nematostella | | | +--| (65.4/53) | | | | +--XP_003382727zf_Amphimedon | | +--| (94.7/54) | | | +**TET1_CXXC_NP_001393294_Homo | | | +----------| (81.7/96) | | | | +------DNMT1_CXXC_NP_001124295_Homo | | | +--| (74.5/51) | | | | +--XP_002678720zf_Naegleria | | | +--| (85/47) | | | | | +--XP_001944678zf_Acyrthosiphon | | | | +--| (94.6/99) | | | | +--XP_003245746zf_Acyrthosiphon | | +--| (72.7/31) | | | +--XP_014205602zf_Copidosoma | | | +--| (89.1/98) | | | | | +--XP_001602151zf_Nasonia | | | | +--| (17.2/76) | | | | +--XP_014212156zf_Copidosoma | | | +--| (50.2/96) | | | | +--XP_011343355zn_Ooceraea | | +--| (94/98) | | +--XP_021916369zf_Zootermopsis | +**| (0/45) | | | +--XP_002955702zf_Volvox | | | +--| (99.2/100) | | | | +--GAX75209zf_Chlamydomonas | | +--| (81.9/71) | | | +--KAG5177154zf_Tribonema | | +--| (15/55) | | +--XP_007510267zf_Bathycoccus +--| (95.7/99) +--XP_004340869zf_Acanthamoeba Tree in newick format: (XP_003058876zf_Micromonas:0.4057140580,((XP_007513594zf_Bathycoccus:0.3440431604,GAQ86298zf_Klebsormidium:0.3890795217)0/51:0.0106819469,((NP_001142044zf_Zea:0.2180928127,NP_195428zf_Arabidopsis:0.1477377159)85.2/95:0.0644221314,XP_024375915zf_Physcomitrium:0.1653432590)86.1/85:0.0778379787)85/64:0.1106379541,(((((((((((((((((XP_661910zf_Aspergillus:0.4342810257,XP_002584966zf_Uncinocarpus:0.5991927015)42/96:0.0896580772,(XP_003717871zf_Pyricularia:0.2878039416,XP_956257zf_Neurospora:0.2289578553)99.2/99:0.5029658284)84.9/90:0.2539040660,(PCNA_NP_872590_Homo:12.2227717553,OQD72380zf_Penicillium:0.0000021385)88.4/90:0.6534377666)74.1/82:0.3556160191,XP_002542770zf_Uncinocarpus:2.2553745747)0/36:0.0000028713,XP_002177665zf_Phaeodactylum:5.4724358350)58.4/76:0.4214816529,XP_021877942zf_Lobosporangium:2.1381444952)73.7/80:0.4173088411,((((((XP_024373437zf_Physcomitrium:0.5136390831,(AQL06694zf_Zea:1.2368053374,AAC17616zf_Arabidopsis:1.3734148692)87.6/85:0.7872902880)23.4/84:0.6319561894,GAQ79928zf_Klebsormidium:2.3556312397)59.4/97:0.7797879083,XP_007508172zf_Bathycoccus:1.6135980478)62.3/81:0.4069466035,XP_002683406zf_Naegleria:1.6810864003)73.3/76:0.1446380109,((((XP_001427761zf_Paramecium:0.5579637263,(XP_001443245zf_Paramecium:0.9080205395,CEL93640zf_Vitrella:3.2606487041)88.9/93:1.1085476550)91.7/92:0.8736168806,CDW86779zf_Stylonychia:0.3441054637)85.4/92:0.6473560304,CDW80849zf_Stylonychia:1.4600774961)93.9/95:0.9382779512,((XP_019025386zf_Saitoella:3.0771337556,XP_002295364zf_Thalassiosira:1.1270660902)75/92:0.7139711327,XP_004368168zf_Acanthamoeba:2.0612218408)71.9/79:0.6651358865)58.8/85:0.4586420781)48.5/69:0.2412051695,(XP_003293946zf_Dictyostelium:1.1390752990,XP_020434135zf_Heterostelium:0.5040311607)94.9/97:0.5698037516)77.6/75:0.2043620270)80/74:0.1658384561,(((((CEP01702zf_Plasmodiophora:1.5035573785,((CEP03996zf_Plasmodiophora:0.9396363018,(CEP03200zf_Plasmodiophora:0.4318465584,CEO94768zf_Plasmodiophora:0.6030124492)82.3/99:0.2844581598)68/89:0.2282874613,((CEO94376zf_Plasmodiophora:0.7575664640,((XP_003293704zf_Dictyostelium:3.4020246513,CDW77674zf_Stylonychia:1.1487887695)72.7/73:0.4540476779,CDW72887zf_Stylonychia:1.6085775374)68.9/71:0.7627381828)78/68:0.2745856768,(CEO96987zf_Plasmodiophora:0.3866844071,CEP03930zf_Plasmodiophora:0.8609330116)97.9/96:0.6471727261)2/36:0.0411871006)73.9/62:0.1424193898)71.1/62:0.0978848679,((CEO98828zf_Plasmodiophora:1.0596789477,(CEO97187_Plasmodiophora:1.7066687877,CEO95544zf_Plasmodiophora:0.6203901236)75.4/99:0.2658539799)81/96:0.4213504522,CEO97286zf_Plasmodiophora:0.8368388982)57/56:0.1374834006)88.9/79:0.5452237867,(ORY84156zf_Leucosporidium:2.1235821813,GAX77805zf_Chlamydomonas:1.9792103699)40.4/58:0.4629536778)72.2/64:0.2548861470,((XP_005819930zf_Guillardia:2.8507185998,(XP_020438860zf_Heterostelium:0.0000020400,XP_003294201zf_Dictyostelium:0.4492145633)91.3/99:0.5946807430)79.9/78:0.6480572498,XP_004344770zf_Acanthamoeba:1.1960121517)77.9/73:0.2963497222)89.6/86:0.2122496281,(XP_004336244zf_Acanthamoeba:2.6342289903,ORX94811zf_Basidiobolus:1.7361187009)0/51:0.0000029616)78.5/83:0.1213435394)97.1/75:0.7368424071,((((((XP_007331801zf_Agaricus:1.0544279334,PBK88371zf_Armillaria:1.0139119226)82.6/99:0.5572716600,XP_001834730zf_Coprinopsis:0.6254354405)96.7/100:1.6663489500,XP_019002670zf_Kwoniella:1.6626223231)5.3/53:0.2852391614,((XP_001830053zf_Coprinopsis:1.5113503593,XP_006460637zf_Agaricus:0.7728567455)78.9/99:0.2795849164,PBK91410zf_Armillaria:0.4368573413)91.9/97:0.3844654586)0/49:0.0000027825,GAO50750zf_Saitoella:1.2903956555)69.6/58:0.0918666448,(XP_019003122zf_Kwoniella:1.0074007651,XP_011388187zf_Ustilago:1.4310048313)40.1/55:0.2167583934)95.1/78:0.5804200326)88.5/52:0.3520009666,((AAG00254zf_Arabidopsis:0.3239557416,AQK52847zf_Zea:0.2625570432)76.3/88:0.1670910299,GAQ86643zf_Klebsormidium:0.3654425225)89.8/62:0.2729466587)44.1/26:0.0401603523,(KXS13106zf_Gonapodya:0.7472659801,CCG81269zf_Taphrina:0.5529502744)79.6/33:0.1284298939)81.2/26:0.0975573087,((XP_018295218zf_Phycomyces:2.1537353869,(ORX71196zf_Linderina:0.1925647447,PIA14937zf_Coemansia:0.4050067099)31.5/67:0.3084993058)60.7/84:0.2991706008,((ORX82853zf_Basidiobolus:0.5467515233,(EXX51020zf_Rhizophagus:0.3086828759,KXS20547zf_Gonapodya:0.3676281659)34.9/71:0.0982627271)83.3/99:0.1727142482,KFH66104zf_Podila:0.8993542018)0/55:0.0221910008)83.6/62:0.0932426750)64.7/23:0.0587890996,((XP_005791698zf_Emiliania:1.8283362916,KXS16402zf_Gonapodya:1.6630362782)98.4/99:2.1275565580,(XP_024393821zf_Physcomitrium:0.5780547345,(((XP_003056019zf_Micromonas:0.1171575185,XP_003061568zf_Micromonas:0.2029968893)56.6/42:0.1330018388,GAX81623zf_:0.4087537781)21.5/35:0.0363089337,XP_007512509zf_Bathycoccus:0.3081395379)79.4/98:0.0893308922)51.8/96:0.2510114700)73.8/88:0.2931389504)89.4/28:0.1727571664,(ORY89976zf_Syncephalastrum:2.5024443994,XP_004340890zf_Acanthamoeba:0.1636316683)90.3/59:0.5007801436)49.7/33:0.0308126465,(((((((((OCT95900zf_Xenopus:0.0463709203,((((CAF96519zf_Tetraodon:0.0461132068,XP_011612425zf_Takifugu:0.0416931278)58.5/88:0.0368429412,XP_007548929zf_Poecilia:0.0497157336)0/84:0.0000024555,XP_022538370zf_Astyanax:0.0931793289)99.5/99:0.1446626327,XP_018411700zf_Nanorana:0.0214129631)74.9/91:0.0253792941)99.6/100:0.1700816844,((((XP_005167472zf_Danio:0.0679457766,((XP_007546543zf_Poecilia:0.0631597993,(CAG09964zf_Tetraodon:0.0000020287,XP_011607948zf_Takifugu:0.0366161794)21.6/95:0.0119139474)42.4/41:0.0123028026,XP_007234924zf_Astyanax:0.0000029781)80.3/40:0.0251867075)90.4/98:0.0472198530,((NP_001091283zf_Xenopus:0.0313986403,XP_003225686zf_Anolis:0.0501030643)37.4/84:0.0169966321,XP_007425803zf_Python:0.0413237181)0/69:0.0000021757)90.4/89:0.0255210075,(((XP_005300469zf_Chrysemys:0.0311151117,(NP_114148zf_Homo:0.0000027509,AAH66169zf_Mus:0.0509315562)98.3/100:0.0921093374)77.3/95:0.0201280344,(XP_040532940zf_Gallus:0.0166360537,XP_013816235zf_Apteryx:0.0082258593)89.2/100:0.0361918217)86.7/93:0.0341261591,XP_020376185zf_Rhincodon:0.0818998962)71.2/79:0.0119080584)0/54:0.0000025456,XP_018427964zf_Nanorana:0.0371121666)88.7/98:0.0655185005)80.8/88:0.0553082306,XP_032821587zf_Petromyzon:0.1224043811)83/88:0.0716208420,((((((((XP_018431819zf_Nanorana:0.0905279883,NP_001090432zf_Xenopus:0.0274398853)94.9/100:0.0657617151,XP_008110846zf_Anolis:0.0197333451)75.2/91:0.0170133028,XP_007439779zf_Python:0.0868242504)78/70:0.0194430339,(XP_013796952zf_Apteryx:0.0123297877,NP_001026153zn_Gallus:0.0000012224)0/88:0.0000024574)71.3/37:0.0123302793,XP_005290896zf_Chrysemys:0.0000025399)77.2/66:0.0252266866,((XP_007260759zf_Astyanax:0.0880819420,XP_002665508zf_Danio:0.0873837098)9.7/75:0.0467783472,(XP_011607165zf_Takifugu:0.1587297197,XP_007547606zn_Poecilia:0.0540803714)98.8/100:0.2501853617)99/96:0.2270522188)74.7/52:0.0266279624,(NP_061189zf_Homo:0.0120599985,NP_666152zf_Mus:0.0798033132)8.8/91:0.0128327211)92/61:0.0772351397,XP_020378518zf_Rhincodon:0.0906239204)82.3/76:0.0837836512)84.7/87:0.0943615240,XP_009862216zf_Ciona:0.4108808107)10.2/64:0.0606769720,XP_035667388zf_Branchiostoma:0.2437591441)48.7/74:0.0583589073,(XP_013792150zf_Limulus:0.2086700890,((XP_014780310zf_Octopus:0.2248261396,XP_011438013zf_Crassostrea:0.1908061933)52.9/99:0.0365028881,XP_001626018zf_Nematostella:0.2578861637)76.8/87:0.0419338577)94.3/95:0.1199473502)84/86:0.0518184135,XP_003382727zf_Amphimedon:0.3608036185)65.4/53:0.0305358869,((((TET1_CXXC_NP_001393294_Homo:0.0000025677,DNMT1_CXXC_NP_001124295_Homo:1.9425006767)81.7/96:3.1608566280,XP_002678720zf_Naegleria:0.4120821634)74.5/51:0.2792919927,(XP_001944678zf_Acyrthosiphon:0.3685603263,XP_003245746zf_Acyrthosiphon:0.1748564516)94.6/99:0.3309883807)85/47:0.2111766995,(((XP_014205602zf_Copidosoma:0.0532635132,(XP_001602151zf_Nasonia:0.0586488784,XP_014212156zf_Copidosoma:0.4762225596)17.2/76:0.0176553236)89.1/98:0.0963849990,XP_011343355zn_Ooceraea:0.2249002939)50.2/96:0.0621541161,XP_021916369zf_Zootermopsis:0.2106790827)94/98:0.1935771739)72.7/31:0.0776119330)94.7/54:0.2389847758)96/66:0.2273683323,((XP_002955702zf_Volvox:0.5191568094,GAX75209zf_Chlamydomonas:0.4622370377)99.2/100:0.8023747187,(KAG5177154zf_Tribonema:0.8696818510,XP_007510267zf_Bathycoccus:0.9246201655)15/55:0.1112883765)81.9/71:0.1288310589)0/45:0.0000020624,XP_004340869zf_Acanthamoeba:0.3365514574)95.7/99:0.2263660221); CONSENSUS TREE -------------- Consensus tree is constructed from 1000 bootstrap trees Log-likelihood of consensus tree: -24722.317161 Robinson-Foulds distance between ML tree and consensus tree: 16 Branches with support >0.000000% are kept (extended consensus) Branch lengths are optimized by maximum likelihood on original alignment Numbers in parentheses are bootstrap supports (%) +--XP_003058876zf_Micromonas | | +--XP_007513594zf_Bathycoccus | +--| (51) | | +--GAQ86298zf_Klebsormidium +--| (64) | | +--NP_001142044zf_Zea | | +--| (95) | | | +--NP_195428zf_Arabidopsis | +--| (85) | +--XP_024375915zf_Physcomitrium | | +--XP_661910zf_Aspergillus | +--| (96) | | +--XP_002584966zf_Uncinocarpus | +--| (90) | | | +--XP_003717871zf_Pyricularia | | +--| (99) | | +--XP_956257zf_Neurospora | +--| (82) | | | +------------------------------------------PCNA_NP_872590_Homo | | +--| (90) | | +--OQD72380zf_Penicillium | +--| (76) | | | +--------XP_002542770zf_Uncinocarpus | | +--| (38) | | +----------------------XP_002177665zf_Phaeodactylum | +--| (80) | | +--------XP_021877942zf_Lobosporangium | +--| (74) | | | +--XP_024373437zf_Physcomitrium | | | +--| (84) | | | | | +----AQL06694zf_Zea | | | | +--| (85) | | | | +----AAC17616zf_Arabidopsis | | | +--| (97) | | | | +---------GAQ79928zf_Klebsormidium | | | +--| (81) | | | | +-----XP_007508172zf_Bathycoccus | | | +--| (76) | | | | +------XP_002683406zf_Naegleria | | | +--| (69) | | | | | +--XP_001427761zf_Paramecium | | | | | +--| (92) | | | | | | | +--XP_001443245zf_Paramecium | | | | | | +---| (93) | | | | | | +-------------CEL93640zf_Vitrella | | | | | +--| (92) | | | | | | +--CDW86779zf_Stylonychia | | | | | +---| (95) | | | | | | +-----CDW80849zf_Stylonychia | | | | +--| (85) | | | | | +------------XP_019025386zf_Saitoella | | | | | +--| (92) | | | | | | +---XP_002295364zf_Thalassiosira | | | | +--| (79) | | | | +-------XP_004368168zf_Acanthamoeba | | +--| (75) | | | +---XP_003293946zf_Dictyostelium | | +--| (97) | | +--XP_020434135zf_Heterostelium | +--| (75) | | | +-----CEP01702zf_Plasmodiophora | | | +--| (62) | | | | | +---CEP03996zf_Plasmodiophora | | | | | +--| (89) | | | | | | | +--CEP03200zf_Plasmodiophora | | | | | | +--| (99) | | | | | | +--CEO94768zf_Plasmodiophora | | | | +--| (62) | | | | | +--CEO94376zf_Plasmodiophora | | | | | +--| (68) | | | | | | | +-------------XP_003293704zf_Dictyostelium | | | | | | | +--| (73) | | | | | | | | +---CDW77674zf_Stylonychia | | | | | | +--| (71) | | | | | | +-----CDW72887zf_Stylonychia | | | | +--| (36) | | | | | +--CEO96987zf_Plasmodiophora | | | | +--| (96) | | | | +--CEP03930zf_Plasmodiophora | | | +--| (79) | | | | | +---CEO98828zf_Plasmodiophora | | | | | +--| (96) | | | | | | | +------CEO97187_Plasmodiophora | | | | | | +--| (99) | | | | | | +--CEO95544zf_Plasmodiophora | | | | +--| (56) | | | | +--CEO97286zf_Plasmodiophora | | | +--| (64) | | | | | +--------ORY84156zf_Leucosporidium | | | | +--| (58) | | | | +-------GAX77805zf_Chlamydomonas | | | +--| (86) | | | | | +-----------XP_005819930zf_Guillardia | | | | | +--| (78) | | | | | | | +--XP_020438860zf_Heterostelium | | | | | | +--| (99) | | | | | | +--XP_003294201zf_Dictyostelium | | | | +--| (73) | | | | +----XP_004344770zf_Acanthamoeba | | +--| (83) | | | +----------XP_004336244zf_Acanthamoeba | | +--| (51) | | +------ORX94811zf_Basidiobolus | +--| (52) | | | +---XP_007331801zf_Agaricus | | | +--| (99) | | | | +---PBK88371zf_Armillaria | | | +------| (100) | | | | +--XP_001834730zf_Coprinopsis | | | +--| (53) | | | | +------XP_019002670zf_Kwoniella | | | +--| (49) | | | | | +-----XP_001830053zf_Coprinopsis | | | | | +--| (99) | | | | | | +--XP_006460637zf_Agaricus | | | | +--| (97) | | | | +--PBK91410zf_Armillaria | | | +--| (58) | | | | +----GAO50750zf_Saitoella | | +--| (78) | | | +---XP_019003122zf_Kwoniella | | +--| (55) | | +-----XP_011388187zf_Ustilago | +--| (26) | | | +--AAG00254zf_Arabidopsis | | | +--| (88) | | | | +--AQK52847zf_Zea | | +--| (62) | | +--GAQ86643zf_Klebsormidium | +--| (26) | | | +--KXS13106zf_Gonapodya | | +--| (33) | | +--CCG81269zf_Taphrina | +--| (28) | | | +--------XP_018295218zf_Phycomyces | | | +--| (84) | | | | | +--ORX71196zf_Linderina | | | | +--| (67) | | | | +--PIA14937zf_Coemansia | | | +--| (62) | | | | | +--ORX82853zf_Basidiobolus | | | | | +--| (99) | | | | | | | +--EXX51020zf_Rhizophagus | | | | | | +--| (71) | | | | | | +--KXS20547zf_Gonapodya | | | | +--| (55) | | | | +--KFH66104zf_Podila | | +--| (23) | | | +------XP_005791698zf_Emiliania | | | +--------| (99) | | | | +------KXS16402zf_Gonapodya | | +--| (88) | | | +--XP_024393821zf_Physcomitrium | | +--| (96) | | | +--XP_003056019zf_Micromonas | | | +--| (49) | | | | +--XP_007512509zf_Bathycoccus | | | +--| (46) | | | | +--XP_003061568zf_Micromonas | | +--| (98) | | +--GAX81623zf_ | +--| (33) | | | +---------ORY89976zf_Syncephalastrum | | +--| (59) | | +--XP_004340890zf_Acanthamoeba | +--| (66) | | | +--OCT95900zf_Xenopus | | | +--| (100) | | | | | +--CAF96519zf_Tetraodon | | | | | +--| (88) | | | | | | +--XP_011612425zf_Takifugu | | | | | +--| (84) | | | | | | +--XP_007548929zf_Poecilia | | | | | +--| (99) | | | | | | +--XP_022538370zf_Astyanax | | | | +--| (91) | | | | +--XP_018411700zf_Nanorana | | | +--| (88) | | | | | +--XP_005167472zf_Danio | | | | | +--| (58) | | | | | | +--XP_007546543zf_Poecilia | | | | | +--| (98) | | | | | | | +--CAG09964zf_Tetraodon | | | | | | | +--| (95) | | | | | | | | +--XP_011607948zf_Takifugu | | | | | | +--| (40) | | | | | | +--XP_007234924zf_Astyanax | | | | | +--| (89) | | | | | | | +--NP_001091283zf_Xenopus | | | | | | | +--| (84) | | | | | | | | +--XP_003225686zf_Anolis | | | | | | +--| (69) | | | | | | +--XP_007425803zf_Python | | | | | +--| (54) | | | | | | | +--XP_005300469zf_Chrysemys | | | | | | | +--| (95) | | | | | | | | | +--NP_114148zf_Homo | | | | | | | | +--| (100) | | | | | | | | +--AAH66169zf_Mus | | | | | | | +--| (93) | | | | | | | | | +--XP_040532940zf_Gallus | | | | | | | | +--| (100) | | | | | | | | +--XP_013816235zf_Apteryx | | | | | | +--| (79) | | | | | | +--XP_020376185zf_Rhincodon | | | | +--| (98) | | | | +--XP_018427964zf_Nanorana | | | +--| (88) | | | | +--XP_032821587zf_Petromyzon | | | +--| (87) | | | | | +--XP_018431819zf_Nanorana | | | | | +--| (100) | | | | | | +--NP_001090432zf_Xenopus | | | | | +--| (91) | | | | | | +--XP_008110846zf_Anolis | | | | | +--| (70) | | | | | | +--XP_007439779zf_Python | | | | | +--| (66) | | | | | | | +--XP_005290896zf_Chrysemys | | | | | | +--| (47) | | | | | | | +--XP_013796952zf_Apteryx | | | | | | +--| (88) | | | | | | +--NP_001026153zn_Gallus | | | | | +--| (52) | | | | | | | +--XP_007260759zf_Astyanax | | | | | | | +--| (75) | | | | | | | | +--XP_002665508zf_Danio | | | | | | +--| (96) | | | | | | | +--XP_011607165zf_Takifugu | | | | | | +--| (100) | | | | | | +--XP_007547606zn_Poecilia | | | | | +--| (61) | | | | | | | +--NP_061189zf_Homo | | | | | | +--| (91) | | | | | | +--NP_666152zf_Mus | | | | +--| (76) | | | | +--XP_020378518zf_Rhincodon | | | +--| (64) | | | | +--XP_009862216zf_Ciona | | | +--| (74) | | | | +--XP_035667388zf_Branchiostoma | | | +--| (86) | | | | | +--XP_013792150zf_Limulus | | | | +--| (95) | | | | | +--XP_014780310zf_Octopus | | | | | +--| (99) | | | | | | +--XP_011438013zf_Crassostrea | | | | +--| (87) | | | | +--XP_001626018zf_Nematostella | | | +--| (53) | | | | +--XP_003382727zf_Amphimedon | | | +--| (35) | | | | | +--XP_014205602zf_Copidosoma | | | | | +--| (98) | | | | | | | +--XP_001602151zf_Nasonia | | | | | | +--| (76) | | | | | | +--XP_014212156zf_Copidosoma | | | | | +--| (96) | | | | | | +--XP_011343355zn_Ooceraea | | | | +--| (98) | | | | +--XP_021916369zf_Zootermopsis | | +--| (54) | | | +--TET1_CXXC_NP_001393294_Homo | | | +-------------| (96) | | | | +-------DNMT1_CXXC_NP_001124295_Homo | | | +--| (51) | | | | +--XP_002678720zf_Naegleria | | +--| (47) | | | +--XP_001944678zf_Acyrthosiphon | | +--| (99) | | +--XP_003245746zf_Acyrthosiphon | +--| (45) | | | +--XP_002955702zf_Volvox | | | +--| (100) | | | | +--GAX75209zf_Chlamydomonas | | +--| (71) | | | +--KAG5177154zf_Tribonema | | +--| (55) | | +---XP_007510267zf_Bathycoccus +--| (99) +--XP_004340869zf_Acanthamoeba Consensus tree in newick format: (XP_003058876zf_Micromonas:0.4171169681,((XP_007513594zf_Bathycoccus:0.3475821142,GAQ86298zf_Klebsormidium:0.3879894096)51:0.0053976552,((NP_001142044zf_Zea:0.2156468697,NP_195428zf_Arabidopsis:0.1487190959)95:0.0640122056,XP_024375915zf_Physcomitrium:0.1665998035)85:0.0777358255)64:0.0993407901,(((((((((((((((XP_661910zf_Aspergillus:0.4320975577,XP_002584966zf_Uncinocarpus:0.5963816746)96:0.0901208309,(XP_003717871zf_Pyricularia:0.2866127630,XP_956257zf_Neurospora:0.2280724517)99:0.5004068814)90:0.2518810573,(PCNA_NP_872590_Homo:9.9999987739,OQD72380zf_Penicillium:0.0000024454)90:0.6502562277)82:0.3607981160,(XP_002542770zf_Uncinocarpus:2.2248391863,XP_002177665zf_Phaeodactylum:5.4111560781)38:0.0000021073)76:0.4171246918,XP_021877942zf_Lobosporangium:2.1165933857)80:0.4122871324,((((((XP_024373437zf_Physcomitrium:0.5128750922,(AQL06694zf_Zea:1.2323061033,AAC17616zf_Arabidopsis:1.3608975125)85:0.7808920109)84:0.6290077848,GAQ79928zf_Klebsormidium:2.3322911113)97:0.7857963994,XP_007508172zf_Bathycoccus:1.6016063063)81:0.4049983402,XP_002683406zf_Naegleria:1.6674203082)76:0.1462626819,((((XP_001427761zf_Paramecium:0.5537371474,(XP_001443245zf_Paramecium:0.8994659320,CEL93640zf_Vitrella:3.2471379150)93:1.1067673815)92:0.8724757229,CDW86779zf_Stylonychia:0.3450172849)92:0.6453128327,CDW80849zf_Stylonychia:1.4580094052)95:0.9365039834,((XP_019025386zf_Saitoella:3.0655030442,XP_002295364zf_Thalassiosira:1.1184158412)92:0.7084326869,XP_004368168zf_Acanthamoeba:2.0655668477)79:0.6554456687)85:0.4592365106)69:0.2375745944,(XP_003293946zf_Dictyostelium:1.1310601662,XP_020434135zf_Heterostelium:0.5036272984)97:0.5705841658)75:0.2055747675)74:0.1611443568,(((((CEP01702zf_Plasmodiophora:1.4937033242,((CEP03996zf_Plasmodiophora:0.9343613280,(CEP03200zf_Plasmodiophora:0.4297543210,CEO94768zf_Plasmodiophora:0.5996206120)99:0.2830500931)89:0.2269298689,((CEO94376zf_Plasmodiophora:0.7527103458,((XP_003293704zf_Dictyostelium:3.4059166631,CDW77674zf_Stylonychia:1.1353790790)73:0.4526673838,CDW72887zf_Stylonychia:1.5956519297)71:0.7627582609)68:0.2729714573,(CEO96987zf_Plasmodiophora:0.3847889438,CEP03930zf_Plasmodiophora:0.8553670690)96:0.6437684822)36:0.0414831402)62:0.1424221178)62:0.0972448793,((CEO98828zf_Plasmodiophora:1.0533354644,(CEO97187_Plasmodiophora:1.6951333227,CEO95544zf_Plasmodiophora:0.6160530488)99:0.2656782619)96:0.4192237253,CEO97286zf_Plasmodiophora:0.8296664987)56:0.1386543186)79:0.5426692104,(ORY84156zf_Leucosporidium:2.1104779098,GAX77805zf_Chlamydomonas:1.9507711380)58:0.4628898448)64:0.2550935137,((XP_005819930zf_Guillardia:2.8275525670,(XP_020438860zf_Heterostelium:0.0000025349,XP_003294201zf_Dictyostelium:0.4467673389)99:0.5947497322)78:0.6391245942,XP_004344770zf_Acanthamoeba:1.1940315829)73:0.2922252261)86:0.2113771088,(XP_004336244zf_Acanthamoeba:2.6315428001,ORX94811zf_Basidiobolus:1.7192562005)51:0.0000021067)83:0.1227502835)75:0.7259005298,((((((XP_007331801zf_Agaricus:1.0476983489,PBK88371zf_Armillaria:1.0071664704)99:0.5642582549,XP_001834730zf_Coprinopsis:0.6198773492)100:1.6587898026,XP_019002670zf_Kwoniella:1.6462129626)53:0.2947690433,((XP_001830053zf_Coprinopsis:1.5072353637,XP_006460637zf_Agaricus:0.7669226639)99:0.2795105820,PBK91410zf_Armillaria:0.4342231317)97:0.3859321241)49:0.0000023831,GAO50750zf_Saitoella:1.2781257121)58:0.0930961943,(XP_019003122zf_Kwoniella:1.0100033265,XP_011388187zf_Ustilago:1.4046099995)55:0.2134591721)78:0.5863063981)52:0.3416718883,((AAG00254zf_Arabidopsis:0.3190912146,AQK52847zf_Zea:0.2665485376)88:0.1580264362,GAQ86643zf_Klebsormidium:0.3703797373)62:0.2678838317)26:0.0467764394,(KXS13106zf_Gonapodya:0.7360547071,CCG81269zf_Taphrina:0.5602508461)33:0.1328601792)26:0.0897803340,(((XP_018295218zf_Phycomyces:2.1491061503,(ORX71196zf_Linderina:0.1920020280,PIA14937zf_Coemansia:0.4026935705)67:0.2945069363)84:0.3048600804,((ORX82853zf_Basidiobolus:0.5521334784,(EXX51020zf_Rhizophagus:0.3268974658,KXS20547zf_Gonapodya:0.3468718320)71:0.0948572153)99:0.1593005673,KFH66104zf_Podila:0.9009755303)55:0.0291589386)62:0.0676563397,((XP_005791698zf_Emiliania:1.8271544202,KXS16402zf_Gonapodya:1.6817201784)99:2.1026997907,(XP_024393821zf_Physcomitrium:0.5552393101,(((XP_003056019zf_Micromonas:0.1656282027,XP_007512509zf_Bathycoccus:0.3721513242)49:0.0624704918,XP_003061568zf_Micromonas:0.1236756496)46:0.0497936761,GAX81623zf_:0.3836201336)98:0.0985535440)96:0.1942145878)88:0.3732840656)23:0.0646166387)28:0.2181864515,(ORY89976zf_Syncephalastrum:2.4706525974,XP_004340890zf_Acanthamoeba:0.1753804803)59:0.4739108891)33:0.0482027111,((((((((((OCT95900zf_Xenopus:0.0462554230,((((CAF96519zf_Tetraodon:0.0460335126,XP_011612425zf_Takifugu:0.0415714400)88:0.0367740862,XP_007548929zf_Poecilia:0.0496205850)84:0.0000028342,XP_022538370zf_Astyanax:0.0929538659)99:0.1443502082,XP_018411700zf_Nanorana:0.0213642237)91:0.0252734059)100:0.1715516706,(((((XP_005167472zf_Danio:0.0586690290,XP_007546543zf_Poecilia:0.0485607783)58:0.0208459302,((CAG09964zf_Tetraodon:0.0000022960,XP_011607948zf_Takifugu:0.0365319612)95:0.0243259365,XP_007234924zf_Astyanax:0.0000022960)40:0.0137876849)98:0.0609423996,((NP_001091283zf_Xenopus:0.0332931979,XP_003225686zf_Anolis:0.0478254650)84:0.0168719192,XP_007425803zf_Python:0.0393463644)69:0.0000026269)89:0.0256165002,(((XP_005300469zf_Chrysemys:0.0311185813,(NP_114148zf_Homo:0.0000022960,AAH66169zf_Mus:0.0507944434)100:0.0918155948)95:0.0201352353,(XP_040532940zf_Gallus:0.0165082575,XP_013816235zf_Apteryx:0.0083045958)100:0.0359715762)93:0.0359217407,XP_020376185zf_Rhincodon:0.0799667506)79:0.0118864680)54:0.0000022983,XP_018427964zf_Nanorana:0.0369805014)98:0.0659893974)88:0.0530033498,XP_032821587zf_Petromyzon:0.1219457077)88:0.0727503024,(((((((XP_018431819zf_Nanorana:0.0902121294,NP_001090432zf_Xenopus:0.0275398287)100:0.0645615474,XP_008110846zf_Anolis:0.0224229131)91:0.0174304965,XP_007439779zf_Python:0.0911842774)70:0.0000025431,(XP_005290896zf_Chrysemys:0.0122954103,(XP_013796952zf_Apteryx:0.0122943147,NP_001026153zn_Gallus:0.0000022960)88:0.0000022960)47:0.0125179403)66:0.0421084680,((XP_007260759zf_Astyanax:0.0885978192,XP_002665508zf_Danio:0.0861137988)75:0.0472145079,(XP_011607165zf_Takifugu:0.1549132975,XP_007547606zn_Poecilia:0.0576009407)100:0.2498606323)96:0.2466250242)52:0.0000021223,(NP_061189zf_Homo:0.0130973352,NP_666152zf_Mus:0.0788556208)91:0.0206027334)61:0.0750374450,XP_020378518zf_Rhincodon:0.0842395535)76:0.0858502101)87:0.0974230385,XP_009862216zf_Ciona:0.4109399259)64:0.0609587589,XP_035667388zf_Branchiostoma:0.2394051282)74:0.0605238499,(XP_013792150zf_Limulus:0.2085526068,((XP_014780310zf_Octopus:0.2246138884,XP_011438013zf_Crassostrea:0.1898673654)99:0.0360534561,XP_001626018zf_Nematostella:0.2566261138)87:0.0417482441)95:0.1127234886)86:0.0533769145,XP_003382727zf_Amphimedon:0.3676504260)53:0.0194314569,(((XP_014205602zf_Copidosoma:0.0536960186,(XP_001602151zf_Nasonia:0.0572535751,XP_014212156zf_Copidosoma:0.4751075107)76:0.0181956922)98:0.1000337862,XP_011343355zn_Ooceraea:0.2205251333)96:0.0558508718,XP_021916369zf_Zootermopsis:0.2187935492)98:0.2564067901)35:0.1045922441,(((TET1_CXXC_NP_001393294_Homo:0.0000025256,DNMT1_CXXC_NP_001124295_Homo:1.9264127570)96:3.3465392597,XP_002678720zf_Naegleria:0.3182393273)51:0.3300971159,(XP_001944678zf_Acyrthosiphon:0.3621112421,XP_003245746zf_Acyrthosiphon:0.1802481667)99:0.3675948385)47:0.1925778066)54:0.1733680274)66:0.2138945019,((XP_002955702zf_Volvox:0.5189253182,GAX75209zf_Chlamydomonas:0.4592841642)100:0.7848029052,(KAG5177154zf_Tribonema:0.8730767661,XP_007510267zf_Bathycoccus:0.9342483894)55:0.1217294590)71:0.1396653099)45:0.0000026436,XP_004340869zf_Acanthamoeba:0.3234658709)99:0.2254091674); TIME STAMP ---------- Date and time: Tue Jun 13 13:41:23 2023 Total CPU time used: 26290.20676 seconds (7h:18m:10s) Total wall-clock time used: 1672.228553 seconds (0h:27m:52s)