species:   Vamal
pid:       PID1242
parent:    Vm-milR35
paralog:   
locus:     JUIY01001220.1:3180-3317
matures:   ['UAGGAUUUAAGUACGAUAUGUC', 'UAUAUCCUAUAGUUAAAUCUUAGU']
srr:       SRR9035426
genome:    /Users/jax/+Genomes/Fungal_genomes/Vamal.GCA_000818155.1_ASM81815v1_genomic.fa
alignment: /media/data/njohnson/+SeqLibraries/FunHP_libraries/Xu2020-uk.SRR9035426.cram
call:      samtools view /media/data/njohnson/+SeqLibraries/FunHP_libraries/Xu2020-uk.SRR9035426.cram JUIY01001220.1:3180-3317

3 out of bounds
11 alignments
6 proper strand
3 stranded perfect matches

   **************************        ************************                                                                             
GUAGAUAUAUCCUAUAGUUAAAUCUUAGUAAGAUUUUAGUAGGAUUUAAGUACGAUAUGUCCUAAAAAGUAAUUUACGAUACCCUUAAGCUAAGUUUAAUAAGAGGGCUAGGGCUAAAGUACCGAUAACGAAAAGACC
...((((((((...((.((((((((((.(((....))).)))))))))).)).)))))))).......((.((((((..((((((..((((...((....))...)))))))).))..)))..))).)).........
---------------------------------------UAGGAUUUAAGUACGAUAUGUC----------------------------------------------------------------------------- l=22 a=2 c
-----UAUAUCCUAUAGUUAAAUCUUAGU------------------------------------------------------------------------------------------------------------- l=24 a=0 c*
---------------------------------------UAGGAUUUAAGUACGAUAUGUC----------------------------------------------------------------------------- l=22 a=2 ma
-----UAUAUCCUAUAGUUAAAUCUUAGU------------------------------------------------------------------------------------------------------------- l=24 a=0 ma*

----------------------------UAAGAUUUUAGUAGGAUUUAAGU--------------------------------------------------------------------------------------- l=23 a=1 
---------------------------------------UAGGAUUUAAGUACGAUAUGUC----------------------------------------------------------------------------- l=22 a=2 (c,ma)
------------------------------------------------------------------------------------------------UAAUAAGAGGGCUAGGGCUAg--------------------- l=21 a=1 
------------------------------------------------------------------------------------------------------GAGGGCUAGcGCUAA--------------------- l=15 a=1 
-------------------------------------------------------------------------------------------------------------------AAAGUACCGAUAACGAAAAGAaC l=23 a=1 

mb-01011
ax-1011011
ku-01
ss-111110111100
fn-001
