species:   Scscl
pid:       PID1604
parent:    Ssc-milR-80
paralog:   
locus:     NW_001820833.1:1138471-1138555
matures:   ['UUCUUAGUAAUGAUUCAUACAUCU', 'AUAAUGUUUCGUUUGAGUUGA']
srr:       SRR12527897
genome:    /Users/jax/+Genomes/Fungal_genomes/Scscl.GCF_000146945.2_ASM14694v2.fa
alignment: /media/data/njohnson/+SeqLibraries/FunHP_libraries/Xia2020-rh.SRR12527897.cram
call:      samtools view /media/data/njohnson/+SeqLibraries/FunHP_libraries/Xia2020-rh.SRR12527897.cram NW_001820833.1:1138471-1138555

4 out of bounds
29 alignments
25 proper strand
25 stranded perfect matches

***********************                                   ************************** 
UGAUAAUGUUUCGUUUGAGUUGAAGUCCACUUCCUCUUUAGCUAGUGGCUUGUGGUGGUUUUCUUAGUAAUGAUUCAUACAUCUC
.(((.(((..(((((((((..((...((((..((.((......)).))...))))...))..))))..)))))..)))..)))..
------------------------------------------------------------UUCUUAGUAAUGAUUCAUACAUCU- l=24 a=3 c
--AUAAUGUUUCGUUUGAGUUGA-------------------------------------------------------------- l=21 a=0 c*
------------------------------------------------------------UUCUUAGUAAUGAUUCAUACAUCU- l=24 a=3 ma
--AUAAUGUUUCGUUUGAGUUGA-------------------------------------------------------------- l=21 a=0 ma*

----------------------------------------------------------------UAGUAAUGAUUCAUACAUCU- l=20 a=2 
---------------------------------------------------------------UUAGUAAUGAUUCAUACAUCU- l=21 a=1 
-------------------------------------------------------------UCUUAGUAAUGAUUCAUACAUCU- l=23 a=2 
------------------------------------------------------------UUCUUAGUAAUGAUUCAUACAUCU- l=24 a=3 (c,ma)
-----------------------------------------------------------UUUCUUAGUAAUGAUUCAUACAUCU- l=25 a=2 
----------------------------------------------------UGGUGGUUUUCUUAGUAAUGA------------ l=21 a=1 
--------------------------------------------------UGUGGUGGUUUUCUUAGUAAUGAUU---------- l=25 a=1 
-----AUGUUUCGUUUGAGUUGAAG------------------------------------------------------------ l=20 a=1 
----AAUGUUUCGUUUGAGUUG--------------------------------------------------------------- l=18 a=1 
---UAAUGUUUCGUUUGAGUUGAA------------------------------------------------------------- l=21 a=1 
--AUAAUGUUUCGUUUGAGUU---------------------------------------------------------------- l=19 a=1 
UGAUAAUGUUUCGUUUGA------------------------------------------------------------------- l=18 a=1 
UGAUAAUGUUUCGUUUGAG------------------------------------------------------------------ l=19 a=1 
UGAUAAUGUUUCGUUUGAGU----------------------------------------------------------------- l=20 a=3 
UGAUAAUGUUUCGUUUGAGUU---------------------------------------------------------------- l=21 a=2 
UGAUAAUGUUUCGUUUGAGUUGA-------------------------------------------------------------- l=23 a=1 
UGAUAAUGUUUCGUUUGAGUUGAAGU----------------------------------------------------------- l=26 a=1 

mb-01011
ax-1001011
ku-01
ss-101111101100
fn-111
