species:   Rhirr
pid:       PID1180
parent:    Locus_345
paralog:   
locus:     scaffold_28:353658-353769
matures:   ['AAUUAAAGUGUGGCUGUCUUGGUG', 'CUAAGAUAGCUGCACUUUAAUUAG']
srr:       ERR2841789
genome:    /Users/jax/+Genomes/Fungal_genomes/Rhirr.Rhiir2_1_AssemblyScaffolds.fa
alignment: /media/data/njohnson/+SeqLibraries/FunHP_libraries/Silvestri2019-js.ERR2841789.cram
call:      samtools view /media/data/njohnson/+SeqLibraries/FunHP_libraries/Silvestri2019-js.ERR2841789.cram scaffold_28:353658-353769

1 out of bounds
11 alignments
9 proper strand
6 stranded perfect matches

       ***********************                                                         ***********************  
UCGACGAGUAAUUAAAGUGUGGCUGUCUUGGUGGUCCGGGUGAUGUACUGUAAGUAACCAGAUCUUGGUUCAGUUACACAUUGAUACUAAGAUAGCUGCACUUUAAUUAGCA
........(((((((((((((((((((((((((.((..((((.(((((((.....(((((.....)))))))).)))))))))))))))))))))))))))))))))))...
---------AAUUAAAGUGUGGCUGUCUUGGUG------------------------------------------------------------------------------- l=24 a=0 c
--------------------------------------------------------------------------------------CUAAGAUAGCUGCACUUUAAUUAG-- l=24 a=0 c*
---------AAUUAAAGUGUGGCUGUCUUG---------------------------------------------------------------------------------- l=21 a=2 ma
-----------------------------------------------------------------------------------------AGAUAGCUGCACUUUAAUUAG-- l=21 a=0 ma*

-------------------UGGCUGUCUUGG--------------------------------------------------------------------------------- l=12 a=1 
---------------gGUGUGGCUGUCUU----------------------------------------------------------------------------------- l=14 a=2 
---------AAUUAAAGUGUGGCUGUCU------------------------------------------------------------------------------------ l=19 a=1 
---------AAUUAAAGUGUGGCUGUCUUG---------------------------------------------------------------------------------- l=21 a=2 (ma)
---------AAUUAAAGUGUGGCUGUCUUGG--------------------------------------------------------------------------------- l=22 a=1 
---------uAUUAAAGUGUGGCUGUCUUGGUG------------------------------------------------------------------------------- l=24 a=1 
---------AAUUAAAGUGUGGCUGUCUUGGUGGUCCGGG------------------------------------------------------------------------ l=31 a=1 

mb-01011
ax-1011011
ku-01
ss-101111111100
fn-111
