species:   Scscl
pid:       PID1601
parent:    Ssc-milR-77
paralog:   
locus:     NW_001820819.1:818042-818128
matures:   ['UUCAAGUCCUUCGGCUCUUUCU', 'AAAGAGCCCGAGACUGAUCA']
srr:       SRR12527895
genome:    /Users/jax/+Genomes/Fungal_genomes/Scscl.GCF_000146945.2_ASM14694v2.fa
alignment: /media/data/njohnson/+SeqLibraries/FunHP_libraries/Xia2020-rh.SRR12527895.cram
call:      samtools view /media/data/njohnson/+SeqLibraries/FunHP_libraries/Xia2020-rh.SRR12527895.cram NW_001820819.1:818042-818128

4 out of bounds
15 alignments
13 proper strand
12 stranded perfect matches

          **********************                     ************************          
CUUUUGCUAGUAAAAGAGCCCGAGACUGAUCAAUGACUCCUUCAAGGAUACGUCUUUCAAGUCCUUCGGCUCUUUCUUCCAUUUCCU
............((((((((.((((((((...(((..((((...))))..)))...)).))).))).))))))))............
-------------------------------------------------------UUCAAGUCCUUCGGCUCUUUCU---------- l=22 a=1 c
------------AAAGAGCCCGAGACUGAUCA------------------------------------------------------- l=20 a=0 c*
-----------------------------------------UCAAGGAUACGUCUUUCAAGUC------------------------ l=22 a=2 ma
------------AAAGAGCCCGAGACUGAUCA------------------------------------------------------- l=20 a=0 ma*

----------UAAAAGAGCCCGAGACUGAUCA------------------------------------------------------- l=22 a=1 
---------------------------------UGACUCCUUCAAGGAUACGUa--------------------------------- l=21 a=1 
-----------------------------------------UCAAGGAUACGUCUUUCAAGUC------------------------ l=22 a=2 (ma)
-----------------------------------------UCAAGGAUACGUCUUUCAAGUCC----------------------- l=23 a=1 
-----------------------------------------UCAAGGAUACGUCUUUCAAGUCCU---------------------- l=24 a=1 
-------------------------------------------------ACGUCUUUCAAGUCCUUCGGCU---------------- l=22 a=1 
------------------------------------------------------UUUCAAGUCCUUCGGCUCUUU------------ l=21 a=1 
------------------------------------------------------UUUCAAGUCCUUCGGCUCUUUC----------- l=22 a=2 
------------------------------------------------------UUUCAAGUCCUUCGGCUCUUUCU---------- l=23 a=1 
-------------------------------------------------------UUCAAGUCCUUCGGCUCUUUCU---------- l=22 a=1 (c)
----------------------------------------------------------------UUCGGCUCUUUCUUCCAUUUCC- l=22 a=1 

mb-00110
ax-1011011
ku-01
ss-111111101100
fn-111
