species:   Opsin
pid:       PID1948
parent:    n_os_milR_52
paralog:   
locus:     JAAVMX010000004.1:1301051-1301214
matures:   ['UGGCGCUAAGACCUAUGGGGC', 'CCCCUAGGUCUUAGCGCCACC']
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 JAAVMX010000004.1:1301051-1301214

0 out of bounds
30 alignments
5 proper strand
3 stranded perfect matches

           *********************                                                                                                    *********************           
GAAGUAGGGGCCCCCUAGGUCUUAGCGCCACCAAAUUUGUAUACGUUAUGUAUCUGCCCGCACCCGCCCGAGCCAUGCCCCUUGAAAAAUUGCUCGGGCGGGUGCGGGCAGAUACAUUGCGUAUACAAAUUUAGUGGCGCUAAGACCUAUGGGGCCCCCACUUC
(((((.((((((((.((((((((((((((((.((((((((((((((.((((((((((((((((((((((((((.((............)).)))))))))))))))))))))))))).)))))))))))))).)))))))))))))))).)))))))).)))))
--------------------------------------------------------------------------------------------------------------------------------------UGGCGCUAAGACCUAUGGGGC--------- l=21 a=1 c
-----------CCCCUAGGUCUUAGCGCCACC------------------------------------------------------------------------------------------------------------------------------------ l=21 a=0 c*
--------------------------------------------------------------------------------------------------------------------------------------UGGCGCUAAGACCUAUGGG----------- l=19 a=2 ma
-------------CCUAGGUCUUAGCGCCACC------------------------------------------------------------------------------------------------------------------------------------ l=19 a=0 ma*

-----------------------------------------------------------------------------------------------------------------------------------------CGCUAAGACCUAUGGGGCCaCCA---- l=23 a=1 
--------------------------------------------------------------------------------------------------------------------------------------UGGCGCUAAGACCUAUGGG----------- l=19 a=2 (ma)
--------------------------------------------------------------------------------------------------------------------------------------UGGCGCUAAGACCUAUGGGGC--------- l=21 a=1 (c)
--------------------------------------------------------------------------------------------------------------------------------------UGGCGCUAAGACCUAUGGGGa--------- l=21 a=1 

mb-01011
ax-1011001
ku-01
ss-101011011100
fn-001
