species:   Rhirr
pid:       PID1179
parent:    Locus_343
paralog:   
locus:     scaffold_28:351831-351938
matures:   ['UUAAAUGGGGGGUGUACUG', 'GUAUGGACCCCGUUUAAAC']
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_28:351831-351938

1 out of bounds
3 alignments
2 proper strand
2 stranded perfect matches

   ************************                                                     ************************    
UUGAAUUAAAUGGGGGGUGUACUGAUCGUCUAAUACGUAAGUAAUCGGAAUCUGCAGGUUCUAGGUUCAGUUACACAUUCUAUCAGUAUGGACCCCGUUUAAACUUUU
.....((((((((((..(((((((((.(........((((.(((((((((((....)))))).)))).).)))).....).)))))))))..))))))))))......
-----UUAAAUGGGGGGUGUACUG------------------------------------------------------------------------------------ l=19 a=0 c
-------------------------------------------------------------------------------------GUAUGGACCCCGUUUAAAC---- l=19 a=0 c*
----------------------------------------------------------------------------------UCAGUAUGGACCCCGUUUAAAC---- l=22 a=1 ma
-----UUAAAUGGGGGGUGUACUGAUC--------------------------------------------------------------------------------- l=22 a=0 ma*

----------------------------------------------------------------------------------UCAGUAUGGACCCCG----------- l=15 a=1 
----------------------------------------------------------------------------------UCAGUAUGGACCCCGUUUAAAC---- l=22 a=1 (ma)

mb-01011
ax-1011011
ku-01
ss-100110111100
fn-001
