species:   Opsin
pid:       PID1879
parent:    n_os_milR_33
paralog:   
locus:     JAAVMX010000003.1:9487931-9488015
matures:   ['UACCCGUUGGGAACUUAGUGU', 'CUAAGAUGCCGGGUUUCGGGUUUC']
srr:       SRR12952898
genome:    /Users/jax/+Genomes/Fungal_genomes/Opsin.GCA_012934285.1_ASM1293428v1_genomic.fa
alignment: /media/data/njohnson/+SeqLibraries/FunHP_libraries/Zhang2021-wd.SRR12952898.cram
call:      samtools view /media/data/njohnson/+SeqLibraries/FunHP_libraries/Zhang2021-wd.SRR12952898.cram JAAVMX010000003.1:9487931-9488015

0 out of bounds
4 alignments
4 proper strand
3 stranded perfect matches

***********************                                    **************************
GAUACCCGUUGGGAACUUAGUGUCUUCGUCGAACUCAGCGAGCCGCUGCCUCUGCCUGGAACUAAGAUGCCGGGUUUCGGGUUUC
((.(((((((((.(.((((((.(((..((.((...(((((...)))))..)).))..))))))))).).))))....))))).))
--UACCCGUUGGGAACUUAGUGU-------------------------------------------------------------- l=21 a=2 c
-------------------------------------------------------------CUAAGAUGCCGGGUUUCGGGUUUC l=24 a=0 c*
--UACCCGUUGGGAACUUAGUGU-------------------------------------------------------------- l=21 a=2 ma
-------------------------------------------------------------CUAAGAUGCCGGGUUUCGGGUUUC l=24 a=0 ma*

--UACCCGUUGGGAACUUAGUGU-------------------------------------------------------------- l=21 a=2 (c,ma)
--UACCCGUUGGGAACUUAGUGUCa------------------------------------------------------------ l=23 a=1 
--UACCCGUUGGGAACUUAGUGUCUU----------------------------------------------------------- l=24 a=1 

mb-01011
ax-1001011
ku-01
ss-111111101100
fn-011
