species:   Pechr
pid:       PID0216
parent:    milR-4
paralog:   
locus:     CM002800.1:3988218-3988278
matures:   ['UGCGACACAAGAACAAUCGGACGAU', 'UCUACGACCAUUCUUUCGCUAU']
srr:       SRR1705825
genome:    /Users/jax/+Genomes/Fungal_genomes/Pechr.GCA_000710275.1_ASM71027v1_genomic.fa
alignment: /media/data/njohnson/+SeqLibraries/FunHP_libraries/Dahlmann2015-ew.SRR1705825.cram
call:      samtools view /media/data/njohnson/+SeqLibraries/FunHP_libraries/Dahlmann2015-ew.SRR1705825.cram CM002800.1:3988218-3988278

1 out of bounds
953 alignments
31 proper strand
27 stranded perfect matches

*************************           ************************ 
UGCGACACAAGAACAAUCGGACGAUUCGAUUCUUCAAUUCUACGACCAUUCUUUCGCUAUC
.((((...(((((...(((...((((.((....))))))...)))...)))))))))....
UGCGACACAAGAACAAUCGGACGAU------------------------------------ l=25 a=11 c
--------------------------------------UCUACGACCAUUCUUUCGCUAU- l=22 a=0 c*
UGCGACACAAGAACAAUCGGACGAU------------------------------------ l=25 a=11 ma
--------------------------------------UCUACGACCAUUCUUUCGCUAU- l=22 a=0 ma*

UuCGACACAAGAACAAUCGGACGAU------------------------------------ l=25 a=1 
UGCGACACAAGAACAAUCGGACGAU------------------------------------ l=25 a=11 (c,ma)
UGCGACACAAGAACAAUCGGACGAUUCGA-------------------------------- l=29 a=1 
UGCGACACAAGAACAAUCGGACGAUUCGAU------------------------------- l=30 a=3 
UGCGACACAAGAACAAUCGGACGAUUCGAUUCUUCAAU----------------------- l=38 a=1 
--CGACACAAGAACAAUCGGACGAU------------------------------------ l=23 a=4 
--CuACACAAGAACAAUCGGACGAU------------------------------------ l=23 a=1 
----ACACAAGAACAAUCGGACGAU------------------------------------ l=21 a=6 
----AgACAAGAACAAUCGGACGAU------------------------------------ l=21 a=1 
-------CAAGAACAAUCGGACGAUUCGAUUCUUCAAUUCU-------------------- l=34 a=1 
-------------CAgUCGGACGAUU----------------------------------- l=13 a=1 

mb-01010
ax-1001001
ku-01
ss-101011001100
fn-001
