species:   Opsin
pid:       PID1875
parent:    n_os_milR_9
paralog:   
locus:     JAAVMX010000009.1:1184375-1184434
matures:   ['UGACGGCGUUGGCAGCCGGGCCGG', 'GGGCCAGCACGGGCAACGUCUUCGUC']
srr:       SRR12952899
genome:    /Users/jax/+Genomes/Fungal_genomes/Opsin.GCA_012934285.1_ASM1293428v1_genomic.fa
alignment: /media/data/njohnson/+SeqLibraries/FunHP_libraries/Zhang2021-wd.SRR12952899.cram
call:      samtools view /media/data/njohnson/+SeqLibraries/FunHP_libraries/Zhang2021-wd.SRR12952899.cram JAAVMX010000009.1:1184375-1184434

1 out of bounds
26 alignments
26 proper strand
4 stranded perfect matches

   ******************************************************   
GUGCCGGGCCAGCACGGGCAACGUCUUCGUCUAUGACGGCGUUGGCAGCCGGGCCGGCAU
(((((((.((.((...(.(((((((.((......)).))))))).).)).)).)))))))
---------------------------------UGACGGCGUUGGCAGCCGGGCCGG--- l=24 a=0 c
-----GGGCCAGCACGGGCAACGUCUUCGUC----------------------------- l=26 a=0 c*
-------------------------------UAUGACGGCGUUGGCAGCCGGGC------ l=23 a=1 ma
-----GGGCCAGCACGGGCAACGUCUUCGUC----------------------------- l=26 a=0 ma*

---------------------------------UGACGGCGUUGGCAGCCGGG------- l=20 a=1 
---------------------------------UGACGGCGUUGGCAGCCGGGC------ l=21 a=1 
-------------------------------UAUGACGGCGUUGGCAGCa---------- l=19 a=1 
-------------------------------UAUGACGGCGUUGGCAGCCcG-------- l=21 a=1 
-------------------------------UAUGACGGCGUUGGCAGCCGu-------- l=21 a=1 
-------------------------------UAUGACGGCGUUGGCAGCCGGG------- l=22 a=1 
-------------------------------UAUGACGGCGUUGGCAGCCGGGC------ l=23 a=1 (ma)
-------------------------------UAUGACGGCGUUGGCAGCCGGGu------ l=23 a=1 
------------------------------uUAUGACGGCGUUGGCAGC----------- l=19 a=2 
------------------------------uUAUGACGGCGUUGGCAGCC---------- l=20 a=1 
------------------------------uUAUGACGGCGUUGGCAGCCGGG------- l=23 a=2 
-----------------------------UuUAUGACGGCGUUGGCAGC----------- l=20 a=4 
-----------------------------UuUAUGACGGCGUUGGCAGCC---------- l=21 a=1 
-----------------------------UuUAUGACGGCGUUGGCAGCCGG-------- l=23 a=1 
-----------------------------UuUAUGACGGCGUUGGCAGCCGGG------- l=24 a=4 
-----------------------------UuUAUGACGGCGUUGGCAGCCGGGC------ l=25 a=3 

mb-00011
ax-1001011
ku-01
ss-100111101100
fn-011
