species:   Scscl
pid:       PID1717
parent:    Ssc-milR-193
paralog:   
locus:     NW_001820833.1:558583-558673
matures:   ['CUUGCAAGAUACGGUCGGCCUUA', 'AUGCGAAACGGUGCACAAGUC']
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_001820833.1:558583-558673

1 out of bounds
43 alignments
29 proper strand
21 stranded perfect matches

        *************************                        ***********************           
UACAGCAAAGCUUGCAAGAUACGGUCGGCCUUAUUGUGUAGGAGAGAUCCGGCAAGGUAAUGCGAAACGGUGCACAAGUCGCGAGGUGUAG
((((.(...(((((...(.(((.((..((.(((((.(((.(((....))).))).))))).))...)).)))).))))).....).)))).
----------CUUGCAAGAUACGGUCGGCCUUA---------------------------------------------------------- l=23 a=5 c
-----------------------------------------------------------AUGCGAAACGGUGCACAAGUC----------- l=21 a=0 c*
----------CUUGCAAGAUACGGUCGGCCUUA---------------------------------------------------------- l=23 a=5 ma
-----------------------------------------------------------AUGCGAAACGGUGCACAAGUC----------- l=21 a=0 ma*

----------------------------------------------------------------------UGCACAAGUCGCcA------- l=14 a=1 
--------------------------------------UAGGAGAGAUCCGGCAAGGUAA------------------------------- l=22 a=3 
------------------------------------UGUAGGAGAGAUCCGGCAAGGU--------------------------------- l=22 a=1 
----------------------------------UGUGUAGGAGAGAUCCGGCAAG----------------------------------- l=22 a=1 
---------------------------------UUGUGUAGGAGAGAUCCGGCAA------------------------------------ l=22 a=5 
------------UGCAAGAUACGGUCGGCCUcA---------------------------------------------------------- l=21 a=1 
------------UGCAAGAUACGGUCGGCCUUA---------------------------------------------------------- l=21 a=1 
-----------UUGCAAGAUACGGUCGGCCU------------------------------------------------------------ l=20 a=2 
-----------UUGCAAGAUACGGUCGGCCUU----------------------------------------------------------- l=21 a=1 
-----------UcGCAAGAUACGGUCGGCCUU----------------------------------------------------------- l=21 a=1 
-----------UUGCgAGAUACGGUCGGCCUU----------------------------------------------------------- l=21 a=1 
-----------UUGCAAGAUACGGUCGGCCUaA---------------------------------------------------------- l=22 a=1 
----------CUUGCAAGAUACGGcCGGCCUU----------------------------------------------------------- l=22 a=1 
----------CUUGCAAGAUACGGUCGGCCUUA---------------------------------------------------------- l=23 a=5 (c,ma)
-------AAGCUUGCAAGAUACGGUCGGCC------------------------------------------------------------- l=23 a=1 
------AAAGCUUGCAAGAUACGGUCa---------------------------------------------------------------- l=21 a=1 
------AAAGCUUGCAAGAUACGGUCGGC-------------------------------------------------------------- l=23 a=1 
----GCAAAGCUUGCAAGAUACGGUa----------------------------------------------------------------- l=22 a=1 

mb-01011
ax-1001011
ku-01
ss-111110101100
fn-101
