species:   Cocin
pid:       PID1275
parent:    cci-milR-21
paralog:   a
locus:     scaffold_254:29215-29260
matures:   ['UCGGAGGUUCACAUUGAGG', 'UCAAUGUGAACCUCCGAUCUAAUC']
srr:       SRR9972087
genome:    /Users/jax/+Genomes/Fungal_genomes/Cocin.Copci_AmutBmut1_AssemblyScaffolds.fa
alignment: /media/data/njohnson/+SeqLibraries/FunHP_libraries/Lau2020-gn.SRR9972087.cram
call:      samtools view /media/data/njohnson/+SeqLibraries/FunHP_libraries/Lau2020-gn.SRR9972087.cram scaffold_254:29215-29260

2 out of bounds
18 alignments
8 proper strand
7 stranded perfect matches

**********************************************
AUCGGAGGUUCACAUUGAGGCCUCAAUGUGAACCUCCGAUCUAAUC
((((((((((((((((((....))))))))))))))))))......
-UCGGAGGUUCACAUUGAGG-------------------------- l=19 a=2 c
----------------------UCAAUGUGAACCUCCGAUCUAAUC l=24 a=0 c*
-UCGGAGGUUCACAUUGAGG-------------------------- l=19 a=2 ma
----------------------UCAAUGUGAACCUCCGAUCUAAUC l=24 a=0 ma*

-UCGGAGGUUCACAUUGAGG-------------------------- l=19 a=2 (c,ma)
-UCGGAGGUUCACAUUGgGGCC------------------------ l=21 a=1 
-UCGGAGGUUCACAUUGAGGCC------------------------ l=21 a=1 
-UCGGAGGUUCACAUUGAGGCCU----------------------- l=22 a=2 
------------------GGCCUCAAUGUGAACCUCCGAUC----- l=23 a=2 

mb-00011
ax-1011001
ku-01
ss-101010011000
fn-101
