species:   Opsin
pid:       PID1871
parent:    n_os_milR_39
paralog:   
locus:     JAAVMX010000001.1:18042309-18042368
matures:   ['UAAUGGAUCUAUCCGGCUAGU', 'UAGCUACAUCAUAGAUUUAACAAC']
srr:       SRR12952906
genome:    /Users/jax/+Genomes/Fungal_genomes/Opsin.GCA_012934285.1_ASM1293428v1_genomic.fa
alignment: /media/data/njohnson/+SeqLibraries/FunHP_libraries/Zhang2021-wd.SRR12952906.cram
call:      samtools view /media/data/njohnson/+SeqLibraries/FunHP_libraries/Zhang2021-wd.SRR12952906.cram JAAVMX010000001.1:18042309-18042368

11 out of bounds
157 alignments
128 proper strand
95 stranded perfect matches

**************************       ***********************    
CUUAGCUACAUCAUAGAUUUAACAACACAAUAACUUAAUGGAUCUAUCCGGCUAGUCACC
.((((((.....(((((((((.................)))))))))..)))))).....
-----------------------------------UAAUGGAUCUAUCCGGCUAGU---- l=21 a=68 c
--UAGCUACAUCAUAGAUUUAACAAC---------------------------------- l=24 a=0 c*
-----------------------------------UAAUGGAUCUAUCCGGCUAGU---- l=21 a=68 ma
--UAGCUACAUCAUAGAUUUAACAAC---------------------------------- l=24 a=0 ma*

----------------------------------UUAAUGGAUCUAUCCGGCUAG----- l=21 a=5 
----------------------------------UUAAUGGAUCUAUCCGGCUAGU---- l=22 a=17 
----------------------------------UUAAUGGAUCUAUCCGGCUAGc---- l=22 a=6 
----------------------------------UUAAUGGAUCUAUCCGGCUAGa---- l=22 a=2 
-----------------------------------UAAUGGAUCUAUCCGGCU------- l=18 a=1 
-----------------------------------UAAUGGAUCUAUCCGGCa------- l=18 a=1 
-----------------------------------UAAUGGAUCUAUCCGGCUAGg---- l=21 a=3 
-----------------------------------UAAUGGAUCUAUCCGGCUAGU---- l=21 a=68 (c,ma)
-----------------------------------UAAUGGAUCUAUCCGGCUAGc---- l=21 a=13 
-----------------------------------UAAUGGAUCUAUCCGGCUAGa---- l=21 a=1 
-----------------------------------UAAUGGAUCUAUCCaGCUAGU---- l=21 a=2 
-----------------------------------cAAUGGAUCUAUCCGGCUAGU---- l=21 a=1 
-----------------------------------UAAUGGgUCUAUCCGGCUAGU---- l=21 a=1 
-----------------------------------UAAUGGAcCUAUCCGGCUAGU---- l=21 a=1 
-----------------------------------UAAUGGAUCUAUCCGGCUAGUC--- l=22 a=1 
-----------------------------------UAAUGGAUCUAUCCGGCUAGUa--- l=22 a=2 
-----------------------------------UAAUGGAUCUAUCCGGCUAGUCA-- l=23 a=1 
-----------------------------------UAAUGGAUCUAUCCGGCUAGUCAC- l=24 a=1 
-----------------------------------UAAUGGAUCUAUCCGGCUAGUCACC l=25 a=1 

mb-01010
ax-1001011
ku-01
ss-111111101110
fn-111
