species:   Scscl
pid:       PID1529
parent:    Ssc-milR-5
paralog:   
locus:     NC_035155.1:14916-15006
matures:   ['UAUUUGCUUAAGGUAUAGUCAG', 'GGCCAACCUAAGGGAAUAAA']
srr:       SRR12527896
genome:    /Users/jax/+Genomes/Fungal_genomes/Scscl.GCF_000146945.2_ASM14694v2.fa
alignment: /media/data/njohnson/+SeqLibraries/FunHP_libraries/Xia2020-rh.SRR12527896.cram
call:      samtools view /media/data/njohnson/+SeqLibraries/FunHP_libraries/Xia2020-rh.SRR12527896.cram NC_035155.1:14916-15006

7 out of bounds
16 alignments
12 proper strand
10 stranded perfect matches

           ************************              *****************************             
GGACAAAAAUUAUUUGCUUAAGGUAUAGUCAGGCAUAACCAAAAAGUUAUGGGAAUACCCUGGCCAACCUAAGGGAAUAAAUAAAAUUCCU
(((......((((((.((((.(((...((((((((((((......)))))).......))))))..))))))).)))))).......))).
----------UAUUUGCUUAAGGUAUAGUCAG----------------------------------------------------------- l=22 a=1 c
-------------------------------------------------------------GGCCAACCUAAGGGAAUAAA---------- l=20 a=0 c*
-------------------------UAGUCAGGCAUAACCAAAAAG--------------------------------------------- l=21 a=2 ma
-------------------------------------------------------------GGCCAACCUAAGGGAAUAAA---------- l=20 a=0 ma*

-----AAAAUUAUUUGCUUAAGGUA------------------------------------------------------------------ l=20 a=1 
----------UAUUUGCUUAAGGUAUAGUCAG----------------------------------------------------------- l=22 a=1 (c)
-------------UUGCUUAAGGUAUAGUCAG----------------------------------------------------------- l=19 a=1 
-------------UUGCUUAAGGUAUAGUCAGGCAa------------------------------------------------------- l=23 a=1 
--------------UGCUUAAGGUAUAGUCAGGCAU------------------------------------------------------- l=22 a=1 
--------------UGCUUAAGGUAUAGUCAGGCAUAA----------------------------------------------------- l=24 a=1 
-----------------UUAAGGUAUAGUCAGG---------------------------------------------------------- l=16 a=1 
--------------------AGGUAUAGUCAGGCAUAACCAA------------------------------------------------- l=22 a=1 
-------------------------UAGUCAGGCAUAACCAAAAAG--------------------------------------------- l=21 a=2 (ma)
----------------------------UCAGGCAUAACCAAAAAGUUAg----------------------------------------- l=22 a=1 
-------------------------------------------------------UACCCUGGCCAACCUAAGGGA--------------- l=21 a=1 

mb-00010
ax-1001011
ku-01
ss-101110101000
fn-101
