species:   Opsin
pid:       PID1926
parent:    n_os_milR_10
paralog:   
locus:     JAAVMX010000004.1:1301060-1301205
matures:   ['AUACAAAUUUGGUGGCGCUAAGACC', 'UCUUAGCGCCACUAAAUUUGUAUAC']
srr:       SRR12952903
genome:    /Users/jax/+Genomes/Fungal_genomes/Opsin.GCA_012934285.1_ASM1293428v1_genomic.fa
alignment: /media/data/njohnson/+SeqLibraries/FunHP_libraries/Zhang2021-wd.SRR12952903.cram
call:      samtools view /media/data/njohnson/+SeqLibraries/FunHP_libraries/Zhang2021-wd.SRR12952903.cram JAAVMX010000004.1:1301060-1301205

6 out of bounds
47 alignments
38 proper strand
28 stranded perfect matches

      *****************************                                                                            *****************************      
GCCCCAUAGGUCUUAGCGCCACUAAAUUUGUAUACGCAAUGUAUCUGCCCGCACCCGCCCGAGCAAUUUUUCAAGGGGCAUGGCUCGGGCGGGUGCGGGCAGAUACAUAACGUAUACAAAUUUGGUGGCGCUAAGACCUAGGGGGC
(((((.((((((((((((((((((((((((((((((..((((((((((((((((((((((((((..................))))))))))))))))))))))))))..)))))))))))))))))))))))))))))).)))))
-----------------------------------------------------------------------------------------------------------------AUACAAAUUUGGUGGCGCUAAGACC-------- l=25 a=8 c
----------UCUUAGCGCCACUAAAUUUGUAUAC--------------------------------------------------------------------------------------------------------------- l=25 a=0 c*
-----------------------------------------------------------------------------------------------------------------AUACAAAUUUGGUGGCGCUAAGACCUA------ l=27 a=9 ma
--------GGUCUUAGCGCCACUAAAUUUGUAUAC--------------------------------------------------------------------------------------------------------------- l=27 a=0 ma*

---------------------------------------------------------------------------------------------UGgGGGCAGAUAC---------------------------------------- l=13 a=1 
-----------------------------------------------------------------------------------------------------------------AUACAAAUUUGGUGGCGCUAAG----------- l=22 a=1 
-----------------------------------------------------------------------------------------------------------------AUACAAAUUUGGUGGCGCUAAGAC--------- l=24 a=2 
-----------------------------------------------------------------------------------------------------------------AUACAAAUUUGGUGGCGCUAAGAu--------- l=24 a=1 
-----------------------------------------------------------------------------------------------------------------AUACAAAUUUGGUGGCGCUAAGAa--------- l=24 a=1 
-----------------------------------------------------------------------------------------------------------------AUACAAAUUUGGUGGCGCUAAGACC-------- l=25 a=8 (c)
-----------------------------------------------------------------------------------------------------------------AUACAAAUUUGGUGGCGCUAAGACu-------- l=25 a=1 
-----------------------------------------------------------------------------------------------------------------AUACAAAUUUGGUGGCGCUAAGACCc------- l=26 a=4 
-----------------------------------------------------------------------------------------------------------------AUACAAAUUUGGUGGCGCUAAGACCU------- l=26 a=7 
-----------------------------------------------------------------------------------------------------------------AUACAAAUUUGGUGGCGCUAAGACCUc------ l=27 a=1 
-----------------------------------------------------------------------------------------------------------------AUACAAAUUUGGUGGCGCUAAGACCUA------ l=27 a=9 (ma)
------------------------------------------------------------------------------------------------------------------------UUUGGUGGCGCUAAGACCUAGGG--- l=23 a=1 
-------------------------------------------------------------------------------------------------------------------------UUGGUGGCGCUAAGACCUAcGG--- l=22 a=1 

mb-01011
ax-1011001
ku-00
ss-101011111100
fn-111
