species:   Scscl
pid:       PID1601
parent:    Ssc-milR-77
paralog:   
locus:     NW_001820819.1:818042-818128
matures:   ['UUCAAGUCCUUCGGCUCUUUCU', 'AAAGAGCCCGAGACUGAUCA']
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_001820819.1:818042-818128

3 out of bounds
9 alignments
8 proper strand
6 stranded perfect matches

     ***********************                             *************************     
CUUUUGCUAGUAAAAGAGCCCGAGACUGAUCAAUGACUCCUUCAAGGAUACGUCUUUCAAGUCCUUCGGCUCUUUCUUCCAUUUCCU
............((((((((.((((((((...(((..((((...))))..)))...)).))).))).))))))))............
-------------------------------------------------------UUCAAGUCCUUCGGCUCUUUCU---------- l=22 a=1 c
------------AAAGAGCCCGAGACUGAUCA------------------------------------------------------- l=20 a=0 c*
---------------------------------UGACUCCUUCAAGGAUACGUCU-------------------------------- l=22 a=3 ma
------------AAAGAGCCCGAGACUGAUCA------------------------------------------------------- l=20 a=0 ma*

--cUUGCUAGUAAAAGAGCCCGAG--------------------------------------------------------------- l=22 a=1 
--------------AGAGCCCGAGACUGAUCAAUGACUCC----------------------------------------------- l=26 a=1 
---------------------------------UGACUCCUUCAAGGAUACGUCU-------------------------------- l=22 a=3 (ma)
-----------------------------------------UCAAGGAUACGUCUUUCAAGUuC----------------------- l=23 a=1 
------------------------------------------------------UUUCAAGUCCUUCGGCUCUU------------- l=20 a=1 
-------------------------------------------------------UUCAAGUCCUUCGGCUCUUUCU---------- l=22 a=1 (c)

mb-00110
ax-1001011
ku-01
ss-101111101100
fn-111
