species:   Scscl
pid:       PID1625
parent:    Ssc-milR-101
paralog:   
locus:     NW_001820823.1:538936-539032
matures:   ['UGGGAGUUGAAAUCUCCUACGA', 'GUAGGUCGGCAUUUGAGCUUUUGUU']
srr:       SRR12527898
genome:    /Users/jax/+Genomes/Fungal_genomes/Scscl.GCF_000146945.2_ASM14694v2.fa
alignment: /media/data/njohnson/+SeqLibraries/FunHP_libraries/Xia2020-rh.SRR12527898.cram
call:      samtools view /media/data/njohnson/+SeqLibraries/FunHP_libraries/Xia2020-rh.SRR12527898.cram NW_001820823.1:538936-539032

18 out of bounds
6 alignments
5 proper strand
4 stranded perfect matches

     ************************                                             ******************     
CAAAUUAUUCGGUGAGUAGGUCGGCAUUUGAGCUUUUGUUAAAGAAGGGGUCCUACCAAGGGUGAUGGGAGUUGAAAUCUCCUACGAGGAUGGUGUG
...(((((((.....(((((..((.((((.(((((((((((......((......)).....))))))))))).)))))))))))..)))))))...
-----------------------------------------------------------------UGGGAGUUGAAAUCUCCUACGA---------- l=22 a=0 c
---------------GUAGGUCGGCAUUUGAGCUUUUGUU--------------------------------------------------------- l=25 a=0 c*
-------UUCGGUGAGUAGGUCGGCAUUU-------------------------------------------------------------------- l=22 a=1 ma
----------------------------------------------------------------------------AUCUCCUACGAGGAUG----- l=16 a=0 ma*

-------UUCGGUGAGUAGGUCGGCAUUU-------------------------------------------------------------------- l=22 a=1 (ma)
------------UGAGUAGGUCGGCAUUUGAGCUa-------------------------------------------------------------- l=23 a=1 
----------------UAGGUCGGCAUUUGAGCUUU------------------------------------------------------------- l=20 a=1 
----------------UAGGUCGGCAUUUGAGCUUUUG----------------------------------------------------------- l=22 a=1 
--------------------------------------------------------------UGAUGGGAGUUGAAAUCUCCUA------------- l=22 a=1 

mb-01111
ax-1011011
ku-01
ss-110111111000
fn-011
