species:   Rhsol
pid:       PID0511
parent:    Rhi-milR-3
paralog:   
locus:     KB317847.1:4995-5088
matures:   ['AAAGGCUGCUCAGAUCAAGAAAC', 'UUUUUCAUUGAGCUAUGUCUAGUA']
srr:       SRR1994876
genome:    /Users/jax/+Genomes/Fungal_genomes/Rhsol.AFRT00000000.1_scaffolds.fa
alignment: /media/data/njohnson/+SeqLibraries/FunHP_libraries/Lin2016-hq.SRR1994876.cram
call:      samtools view /media/data/njohnson/+SeqLibraries/FunHP_libraries/Lin2016-hq.SRR1994876.cram KB317847.1:4995-5088

44 out of bounds
47 alignments
41 proper strand
38 stranded perfect matches

                      ***********************             **************************          
UUGCUCACUACCCUUUGCAACCGUUUUUUCAUUGAGCUAUGUCUAGUAAUCUAUCUGCUGAAAAGGCUGCUCAGAUCAAGAAACUUUGUGAGCA
.(((((((..............(((((((..((((((...((((((((.......))))....)))).))))))...)))))))...)))))))
-------------------------------------------------------------AAAGGCUGCUCAGAUCAAGAAAC---------- l=23 a=3 c
------------------------UUUUUCAUUGAGCUAUGUCUAGUA---------------------------------------------- l=24 a=0 c*
------------------------------------------------------------AAAAGGCUGCUCAGAUCAAGAAAC---------- l=24 a=10 ma
------------------------UUUUUCAUUGAGCUAUGUCUA------------------------------------------------- l=21 a=0 ma*

---------------------------------------------------------------AGGCUGCUCAGAUCAAGAAACUU-------- l=23 a=1 
--------------------------------------------------------------AAGGCUGCUCAGAUCAAGAAAu---------- l=22 a=1 
--------------------------------------------------------------AAGGCUGCUCAGAUCAAGAAACUU-------- l=24 a=1 
-------------------------------------------------------------AAAGGCUGCUCAGAUCAAGAAA----------- l=22 a=1 
-------------------------------------------------------------AAAGGCUGCUCAGAUCAAGAAAC---------- l=23 a=3 (c)
-------------------------------------------------------------AAAGGCUGCUCAGAUCAAGAAACU--------- l=24 a=1 
------------------------------------------------------------AAAAGGCUGCUCAGAUCAAGA------------- l=21 a=2 
------------------------------------------------------------AAAAGGCUGCUCAGAUuAAGAA------------ l=22 a=1 
------------------------------------------------------------AAAAGGCUGCUCAGAUCAAGAA------------ l=22 a=2 
------------------------------------------------------------AAAAGGCUGCUCAGAUCAAGAAA----------- l=23 a=4 
------------------------------------------------------------AAAAGGCUGCUCAGAUCAAGAAAC---------- l=24 a=10 (ma)
----------------------------------------------------------UGAAAAGGCUGCUCAGAUCAAGA------------- l=23 a=3 
----------------------------------------------------------UGAAAAGGCUGCUCAGAUCAAGAA------------ l=24 a=9 
----------------------------------------------------------UGAAAAGGCUaCUCAGAUCAAGAAA----------- l=25 a=1 
-------------------------------------------------------UGCUGAAAAGGCUGCUCAGAUC----------------- l=22 a=1 

mb-00011
ax-1001011
ku-01
ss-111111101100
fn-111
