species:   Scscl
pid:       PID1561
parent:    Ssc-milR-37
paralog:   
locus:     NW_001820813.1:216008-216095
matures:   ['UAGACGGCGAGAUUGGCCCGGA', 'UGGGUUCAGUCCUUCGCCAUUAAU']
srr:       SRR12527899
genome:    /Users/jax/+Genomes/Fungal_genomes/Scscl.GCF_000146945.2_ASM14694v2.fa
alignment: /media/data/njohnson/+SeqLibraries/FunHP_libraries/Xia2020-rh.SRR12527899.cram
call:      samtools view /media/data/njohnson/+SeqLibraries/FunHP_libraries/Xia2020-rh.SRR12527899.cram NW_001820813.1:216008-216095

220 out of bounds
396 alignments
13 proper strand
12 stranded perfect matches

           **************************                 ************************          
CAACCUGGUUAGAUGGGUUCAGUCCUUCGCCAUUAAUCGAUCCAUCAAGAUCCGACUAGACGGCGAGAUUGGCCCGGAAACAAAGCUA
.......(((...(((((.(((((..(((((.(((.((((((......))).))).)))..)))))))))))))))..))).......
--------------------------------------------------------UAGACGGCGAGAUUGGCCCGGA---------- l=22 a=0 c
-------------UGGGUUCAGUCCUUCGCCAUUAAU--------------------------------------------------- l=24 a=0 c*
---------------------------------------------CAAGAUCCGACUAGACGGCGAGA-------------------- l=23 a=4 ma
-------------UGGGUUCAGUCCUUCGCCAUUAAU--------------------------------------------------- l=24 a=0 ma*

-----UGGUUAGAUGGGUUCAGUCCU-------------------------------------------------------------- l=21 a=1 
----------------------------------AAUCGAUCCAUCAAGAUCCGACU------------------------------- l=23 a=1 
-------------------------------------CGAUCCAUCAAGAUCCGACUAGA---------------------------- l=23 a=2 
-----------------------------------------CaAUCAAGAUCCGACUAGA---------------------------- l=19 a=1 
---------------------------------------------CAAGAUCCGACUAGACGGCGAG--------------------- l=22 a=1 
---------------------------------------------CAAGAUCCGACUAGACGGCGAGA-------------------- l=23 a=4 (ma)
-----------------------------------------------AGAUCCGACUAGACGGCGA---------------------- l=19 a=1 
--------------------------------------------------UCCGACUAGACGGCGAGA-------------------- l=18 a=1 
--------------------------------------------------------UAGACGGCGAGAUUGGCCCGG----------- l=21 a=1 

mb-00111
ax-1011011
ku-01
ss-111111001100
fn-101
