species:   Scscl
pid:       PID1617
parent:    Ssc-milR-93
paralog:   
locus:     NW_001820822.1:524927-525017
matures:   ['UGGUUGAACUGUCGCCGACGACA', 'UCAUCGUAUUAUUCUCGGA']
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_001820822.1:524927-525017

29 out of bounds
181 alignments
45 proper strand
40 stranded perfect matches

             ********************                     ************************             
UCCACUUGGAAGUCAUCGUAUUAUUCUCGGACGCCAAUGGUUAGCUUACCAUGACAUCUGGUUGAACUGUCGCCGACGACAAUUCAGGUGG
.(((((((((.(((.(((.((..((((((((.(.((.((((......)))))).).)))))..)))..))...))).)))..)))))))))
----------------------------------------------------------UGGUUGAACUGUCGCCGACGACA---------- l=23 a=4 c
------------UCAUCGUAUUAUUCUCGGA------------------------------------------------------------ l=19 a=0 c*
--------------------------------------------------------UCUGGUUGAACUGUCGCCGACG------------- l=22 a=7 ma
---------------UCGUAUUAUUCUCGGACG---------------------------------------------------------- l=18 a=0 ma*

-------------------------------------------------------------------------------CAAUUCAGGUGG l=12 a=1 
-----------------------------------------------------------------------GCCGACGACAAUUCAGGUGG l=20 a=1 
---------------------------------------------------------------------UCGCCGACGACAAUUCAGG--- l=19 a=1 
-------------------------------------------------------------------UGUCGCCGACGACAAUUCAGG--- l=21 a=3 
--------------------------------------------------------------UGAACUGUCGCCGACGACA---------- l=19 a=1 
--------------------------------------------------------------UGAACUGUCGCCGACGACAA--------- l=20 a=1 
--------------------------------------------------------------UGAACUGUCGCCGACGACAAU-------- l=21 a=1 
--------------------------------------------------------------UGAACUGUCGCCGACGACAAUU------- l=22 a=1 
-------------------------------------------------------------UUGAACUGUCGCCGACGACAAU-------- l=22 a=2 
-------------------------------------------------------------UUGAACUGaCGCCGACGACAAU-------- l=22 a=1 
-------------------------------------------------------------UUGAACUGUCGCCGACGACAAUU------- l=23 a=1 
----------------------------------------------------------UGGUUGAACUGUCGCCGACG------------- l=20 a=1 
----------------------------------------------------------UGGUUGAACUGUCGCCGACGg------------ l=21 a=1 
----------------------------------------------------------UGGUUGAACUGUCGCCGACGA------------ l=21 a=2 
----------------------------------------------------------UGGUUGAACUGUCGCCGACGAC----------- l=22 a=1 
----------------------------------------------------------UGGUUGAACUGUCGCCGACGACA---------- l=23 a=4 (c)
--------------------------------------------------------UCUGGUUGAACUGUCGCCG---------------- l=19 a=1 
--------------------------------------------------------UCUGGUUGAACUGUCGCCGAC-------------- l=21 a=1 
--------------------------------------------------------UCUGGUUGAACUGUCGCCGACG------------- l=22 a=7 (ma)
--------------------------------------------------------UCUGGUUGAACUGUCGCCGgCG------------- l=22 a=1 
-------------------------------------------------------AUCUGGUUGAACUGUCGCCGA--------------- l=21 a=1 
---------------------------------------------------UGACAUCUGGUUGAACUGUCG------------------- l=21 a=1 
---------------------------------------------------UGACAUCUGGUUGAACUGUCGC------------------ l=22 a=3 
---------------------------------------------------UGACAUCUGGUUGAACUGUCGa------------------ l=22 a=2 
--------------------------------------------------AUGACAUCUGGUUGAACUGUCG------------------- l=22 a=1 
--------------------------------------------------AUGACAUCUGGUUGAACUGUCGC------------------ l=23 a=1 
--------------------------------------------------AUGACAUCUGGUUGAACUGUCGCCGA--------------- l=26 a=1 
-------------------------------------------------CAUGACAUCUGGUUGAACUGUCG------------------- l=23 a=1 
----------------------------------------------UACCAUGACAUCUGGUUGAACUG---------------------- l=23 a=1 

mb-01011
ax-1001011
ku-01
ss-111110001000
fn-101
