species:   Pechr
pid:       PID0214
parent:    milR-2
paralog:   
locus:     CM002800.1:2410668-2410742
matures:   ['UGAGAACGCUGAUAUAUAUAU', 'GUAUAAUUUUGUUGAAGUCUUACU']
srr:       SRR1705826
genome:    /Users/jax/+Genomes/Fungal_genomes/Pechr.GCA_000710275.1_ASM71027v1_genomic.fa
alignment: /media/data/njohnson/+SeqLibraries/FunHP_libraries/Dahlmann2015-ew.SRR1705826.cram
call:      samtools view /media/data/njohnson/+SeqLibraries/FunHP_libraries/Dahlmann2015-ew.SRR1705826.cram CM002800.1:2410668-2410742

29 out of bounds
386 alignments
379 proper strand
374 stranded perfect matches

************************                            ***********************
GUAUAAUUUUGUUGAAGUCUUACUUAUAUUUCGUGGUUAAAGACGAAGAGCAUGUGAGAACGCUGAUAUAUAUAU
(((((..((.((.....((((((.....((((((........)))))).....))))))..)).))..)))))..
------------------------------------------------------UGAGAACGCUGAUAUAUAUAU l=21 a=320 c
GUAUAAUUUUGUUGAAGUCUUACU--------------------------------------------------- l=24 a=0 c*
------------------------------------------------------UGAGAACGCUGAUAUAUAUAU l=21 a=320 ma
GUAUAAUUUUGUUGAAGUCUUACU--------------------------------------------------- l=24 a=0 ma*

-UAUAAUUUUGUUGAAGUCUUAC---------------------------------------------------- l=22 a=8 
-UAUAAUUUUGUUGAAGUCUUACU--------------------------------------------------- l=23 a=3 
---UAAUUUUGUUGAAGUCUUAC---------------------------------------------------- l=20 a=1 
----AAUUUUGUUGAAGUCUUAC---------------------------------------------------- l=19 a=1 
-----------------------UUAUAUUUCGUGGUUAAAGAC------------------------------- l=21 a=3 
------------------------UAUAUUUCGUGGUUAAAGACG------------------------------ l=21 a=3 
----------------------------------------------------UGUGAGAACGCUGAUAUAUAU-- l=21 a=14 
----------------------------------------------------UGUGAGAACGCUGAUAUAUAUAU l=23 a=3 
------------------------------------------------------UGAGAACGCUGAUAUAU---- l=17 a=2 
------------------------------------------------------UGAGAACGCUGAUAUAUAU-- l=19 a=14 
------------------------------------------------------UGAGAACGCUGAUAUAUAUAU l=21 a=320 (c,ma)
------------------------------------------------------UGAGAACGCcGAUAUAUAUAU l=21 a=1 
------------------------------------------------------UGAGAACGCUGgUAUAUAUAU l=21 a=1 
------------------------------------------------------UGAGAACGgUGAUAUAUAUAU l=21 a=1 
------------------------------------------------------UGAGAACGCgGAUAUAUAUAU l=21 a=1 
------------------------------------------------------UGAGAACGCUGAUAUuUAUAU l=21 a=1 
-------------------------------------------------------GAGAACGCUGAUAUAUAUAU l=20 a=2 

mb-01111
ax-1001111
ku-01
ss-111111101110
fn-111
