species:   Scscl
pid:       PID1759
parent:    Ssc-milR-235
paralog:   
locus:     NW_001820835.1:1418488-1418568
matures:   ['UCAUUACUCGAGUAGGUAGGUA', 'CCUGCCUACUCGAGUAAUGAAA']
srr:       SRR12527896
genome:    /Users/jax/+Genomes/Fungal_genomes/Scscl.GCF_000146945.2_ASM14694v2.fa
alignment: /media/data/njohnson/+SeqLibraries/FunHP_libraries/Xia2020-rh.SRR12527896.cram
call:      samtools view /media/data/njohnson/+SeqLibraries/FunHP_libraries/Xia2020-rh.SRR12527896.cram NW_001820835.1:1418488-1418568

2 out of bounds
32 alignments
31 proper strand
29 stranded perfect matches

***********************                                  ************************
UCCUGCCUACUCGAGUAAUGAAAGUUUGGUGUACUUAUGAUGUUGGAACAUACAAACUUUCAUUACUCGAGUAGGUAGGUA
.(((((((((((((((((((((((((((((((.((.........)).)))).)))))))))))))))))))))))))))..
-----------------------------------------------------------UCAUUACUCGAGUAGGUAGGUA l=22 a=13 c
-CCUGCCUACUCGAGUAAUGAAA---------------------------------------------------------- l=22 a=0 c*
-----------------------------------------------------------UCAUUACUCGAGUAGGUAGGUA l=22 a=13 ma
-CCUGCCUACUCGAGUAAUGAAA---------------------------------------------------------- l=22 a=0 ma*

-------UACUCGAGUAAUGAAAGUUUGG---------------------------------------------------- l=22 a=1 
-----------------------------------UAUGAUGUUGGAACAUACAAA------------------------- l=21 a=1 
-------------------------------------UGAUGUUGGAACAUACAAACUU---------------------- l=22 a=1 
-----------------------------------------------------------UCAUUACUCGAGUAGGUA---- l=18 a=2 
-----------------------------------------------------------UCAUUACUCGAGUAGGUAG--- l=19 a=1 
-----------------------------------------------------------UCAUUACUCGAGUAGGUAGG-- l=20 a=8 
-----------------------------------------------------------UCAUUACUCGAGUAGGUAGGa- l=21 a=1 
-----------------------------------------------------------UCAUUACUCGAGUAGGUAGGU- l=21 a=2 
-----------------------------------------------------------UCAUUACUCGAGUAGGUAGGUA l=22 a=13 (c,ma)
-----------------------------------------------------------UCAUUACUCGAGUAGGUAGGaA l=22 a=1 

mb-01111
ax-1011011
ku-01
ss-111111111100
fn-111
