species:   Comil
pid:       PID1138
parent:    milR6
paralog:   
locus:     NW_006271969.1:4318423-4318569
matures:   ['AAUUGUUCCCUGAGCCAGCUGUCUG', 'GAGGCGGAUUCUUCAGCAAGUGG']
srr:       SRR8054059
genome:    /Users/jax/+Genomes/Fungal_genomes/Comil.GCF_000225605.1_CmilitarisCM01_v01_genomic.fa
alignment: /media/data/njohnson/+SeqLibraries/FunHP_libraries/Shao2019-xf.SRR8054059.cram
call:      samtools view /media/data/njohnson/+SeqLibraries/FunHP_libraries/Shao2019-xf.SRR8054059.cram NW_006271969.1:4318423-4318569

2 out of bounds
12 alignments
6 proper strand
4 stranded perfect matches

      **************************                                                                                    *************************      
CAUUGGUGGCCCAAUUGUUCCCUGAGCCAGCUGUCUGAGCCUCCAGCUUGACGGGCGUCGUGCCGUCCAUGAAUCCCAUUGCAGGCAUGAUAAAGGCGCCCGCACUGUCGGCCGGAGGCGGAUUCUUCAGCAAGUGGGCUAGGUGUG
(((...(((((((.(((((....(((((.(((.((((.(((..(((..((.(((((((((((((..(.(((.....))).)..)))))......)))))))))))))..)))))))))))).)))...))))).)))))))...)))
------------AAUUGUUCCCUGAGCCAGCUGUCUG-------------------------------------------------------------------------------------------------------------- l=25 a=0 c
------------------------------------------------------------------------------------------------------------------GAGGCGGAUUCUUCAGCAAGUGG---------- l=23 a=0 c*
----------------------------------------------------------------------------------------------------------------------CGGAUUCUUCAGCAAGUGGGCUA------ l=23 a=2 ma
--------GCCCAAUUGUUCCCUGAGCCAGCU------------------------------------------------------------------------------------------------------------------- l=24 a=0 ma*

----------------------------------------------------------------------------------------------------------------------CGGAUUCUUCAGCAAGUGGa--------- l=20 a=1 
----------------------------------------------------------------------------------------------------------------------CGGAUUCUUCAGCAAGUGGGCUA------ l=23 a=2 (ma)
------------------------------------------------------------------------------------------UAAAGGCGCCCGCACUGUCGG------------------------------------ l=21 a=1 
------------------------AGCCAGCUGUCUGAGCCUCCAGC---------------------------------------------------------------------------------------------------- l=23 a=1 
----GGUGGCCCAAUUGUUCCCUGAaC------------------------------------------------------------------------------------------------------------------------ l=23 a=1 

mb-01111
ax-1001011
ku-01
ss-111110101100
fn-001
