species:   Pimic
pid:       PID1828
parent:    Pmic_miR-5
paralog:   
locus:     scaffold_57:72308-72667
matures:   ['UACCGAUCUGCCUGUGGGACA', 'UCCCACGGGAAGGUCGGUUGC']
srr:       SRX5082421
genome:    /Users/jax/+Genomes/Fungal_genomes/Pimic.Pismi1_AssemblyScaffolds.fa
alignment: /media/data/njohnson/+SeqLibraries/FunHP_libraries/Wong-Bajracharya2022-kz.SRX5082421.cram
call:      samtools view /media/data/njohnson/+SeqLibraries/FunHP_libraries/Wong-Bajracharya2022-kz.SRX5082421.cram scaffold_57:72308-72667

0 out of bounds
9939 alignments
9939 proper strand
9009 stranded perfect matches

                                                                                                                                                                                             ***********************   ***********************                                                                                                                          
CUUCGUCUUCAAAAUGGUGGAUCCAUGGAACUCAGUCUCUUGGAUGUCCCACGGGAAGGUCGGUUGCAGUACUACCGAUCUGCCUGUGGGACAUCAUCACGCACUGCAAACACCUACAGUGUUGCUCUCUUACCACGCAGGAGCCUUAUCUUGCAUUUCGAGGGCGGCAGGAACAUCGUGAUUCACGGAUGUCCCCCAAGAGGAUCGGUUGCAGUACUACCGAUCUGCUUGUGGGACAUCAUCACAUCAUCACGCAUACUGCAAAUAUCUACUGUGUUACUAUCUUACUAUGUGGGGAGAAUCUUGGAUGUUGAAAUGGCAAGAACAUUGUGAUUCACAAUCCGAUAGAUUUCCUUCCCG
.............(((((((....(((((((.((((......(((((((((((((.((((((((.........)))))))).))))))))))))).....((((((..........))))))(((((((.......((((((......)))))).....)))))))((((......((((((.....((((((((.((((.((((((((.........)))))))).)))).))))))))........))))))....))))........)))).))).)))).)))))))..((((((((((((((((..((((.(.((((.....)))).)))))..)))))..)))))..)))))).
------------------------------------------------------------------------UACCGAUCUGCCUGUGGGACA--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=21 a=0 c
----------------------------------------------UCCCACGGGAAGGUCGGUUGC----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=21 a=0 c*
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=6469 ma
-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UCCCCCAAGAGGAUCGGUUGC---------------------------------------------------------------------------------------------------------------------------------------------------- l=21 a=0 ma*

----------------------------------------------UCCCACGGGAAGaUCGGUUGCA---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=22 a=1 
----------------------------------------------UCCCACGGGAAGaUCGGUUGCAGU-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=24 a=1 
----------------------------------------------UCCCACGGGAAGaUCGGUUGCAGUAC------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ l=26 a=12 
----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GUCCCCCAAGAaGAUCGGUUGC---------------------------------------------------------------------------------------------------------------------------------------------------- l=22 a=1 
-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UCCCCCAAGAaGAUCGGU------------------------------------------------------------------------------------------------------------------------------------------------------- l=18 a=1 
-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UCCCCCAAGAaGAUCGGUUG----------------------------------------------------------------------------------------------------------------------------------------------------- l=20 a=28 
-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UCCCCCAAGAaGAUCGGUUGC---------------------------------------------------------------------------------------------------------------------------------------------------- l=21 a=34 
-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UCCCCCAAGAaGAUCGGUUGCA--------------------------------------------------------------------------------------------------------------------------------------------------- l=22 a=7 
-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UCCCCCAAGAaGAUCGGUUGCAG-------------------------------------------------------------------------------------------------------------------------------------------------- l=23 a=49 
-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UCCCCCAAGAaGAUCGGUUGCAGU------------------------------------------------------------------------------------------------------------------------------------------------- l=24 a=31 
-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UCCCCCAAGAaGAUCGGUUGCAGUA------------------------------------------------------------------------------------------------------------------------------------------------ l=25 a=49 
-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UCCCCCAAGAaGAUCGGUUGCAGUAC----------------------------------------------------------------------------------------------------------------------------------------------- l=26 a=260 
-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UCCCCCAAGAaGAUCGGUUGCAGUACU---------------------------------------------------------------------------------------------------------------------------------------------- l=27 a=5 
-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UCCCCCAAGAaGAUCGGUUGCAGUACUA--------------------------------------------------------------------------------------------------------------------------------------------- l=28 a=5 
-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UCCCCCAAGAaGAUCGGUUGCAGUACUAC-------------------------------------------------------------------------------------------------------------------------------------------- l=29 a=3 
-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UCCCCCAAGAaGAUCGGUUGCAGUACUACC------------------------------------------------------------------------------------------------------------------------------------------- l=30 a=1 
------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CCCCCAAGAaGAUCGGUU------------------------------------------------------------------------------------------------------------------------------------------------------ l=18 a=1 
------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CCCCCAAGAaGAUCGGUUGCAG-------------------------------------------------------------------------------------------------------------------------------------------------- l=22 a=1 
------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CCCCCAAGAaGAUCGGUUGCAGU------------------------------------------------------------------------------------------------------------------------------------------------- l=23 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CCCCAAGAaGAUCGGUUGCAGUACU---------------------------------------------------------------------------------------------------------------------------------------------- l=25 a=1 
--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CCCAAGAaGAUCGGUUGCAGUACU---------------------------------------------------------------------------------------------------------------------------------------------- l=24 a=1 
--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CCCAAGAaGAUCGGUUGCAGUACUA--------------------------------------------------------------------------------------------------------------------------------------------- l=25 a=1 
--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CCCAAGAaGAUCGGUUGCAGUACUAC-------------------------------------------------------------------------------------------------------------------------------------------- l=26 a=4 
---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CCAAGAaGAUCGGUUGCAGUACUACC------------------------------------------------------------------------------------------------------------------------------------------- l=26 a=1 
---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GUACUACCGAUCUGCUUGUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=25 a=6 
------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CUACCGAUCUGCUUGUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=22 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUG--------------------------------------------------------------------------------------------------------------------------------- l=14 a=4 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGG------------------------------------------------------------------------------------------------------------------------------ l=17 a=3 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGG----------------------------------------------------------------------------------------------------------------------------- l=18 a=193 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGu----------------------------------------------------------------------------------------------------------------------------- l=18 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGGA---------------------------------------------------------------------------------------------------------------------------- l=19 a=1450 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUaUGCUUGUGGGA---------------------------------------------------------------------------------------------------------------------------- l=19 a=3 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGuGA---------------------------------------------------------------------------------------------------------------------------- l=19 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUaUGGGA---------------------------------------------------------------------------------------------------------------------------- l=19 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGGu---------------------------------------------------------------------------------------------------------------------------- l=19 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACaGAUCUGCUUGUGGGA---------------------------------------------------------------------------------------------------------------------------- l=19 a=2 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGuA---------------------------------------------------------------------------------------------------------------------------- l=19 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------cACCGAUCUGCUUGUGGGA---------------------------------------------------------------------------------------------------------------------------- l=19 a=2 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUcUGGGA---------------------------------------------------------------------------------------------------------------------------- l=19 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UuCCGAUCUGCUUGUGGGA---------------------------------------------------------------------------------------------------------------------------- l=19 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGgUUGUGGGA---------------------------------------------------------------------------------------------------------------------------- l=19 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACuGAUCUGCUUGUGGGA---------------------------------------------------------------------------------------------------------------------------- l=19 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGGAC--------------------------------------------------------------------------------------------------------------------------- l=20 a=833 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGGAu--------------------------------------------------------------------------------------------------------------------------- l=20 a=208 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGGAg--------------------------------------------------------------------------------------------------------------------------- l=20 a=36 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUaUGCUUGUGGGAC--------------------------------------------------------------------------------------------------------------------------- l=20 a=2 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGGAa--------------------------------------------------------------------------------------------------------------------------- l=20 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------aACCGAUCUGCUUGUGGGAC--------------------------------------------------------------------------------------------------------------------------- l=20 a=2 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UgCCGAUCUGCUUGUGGGAC--------------------------------------------------------------------------------------------------------------------------- l=20 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=6469 (ma)
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGGACc-------------------------------------------------------------------------------------------------------------------------- l=21 a=5 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGGACu-------------------------------------------------------------------------------------------------------------------------- l=21 a=11 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------aACCGAUCUGCUUGUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=5 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUaUGCUUGUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=4 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGcGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUcGUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAaCUGCUUGUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=3 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACaGAUCUGCUUGUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=2 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCcGCUUGUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGGACg-------------------------------------------------------------------------------------------------------------------------- l=21 a=11 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGgUCUGCUUGUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGGgCA-------------------------------------------------------------------------------------------------------------------------- l=21 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCuAUCUGCUUGUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGuGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=4 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGuACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACgGAUCUGCUUGUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------cACCGAUCUGCUUGUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGGAgA-------------------------------------------------------------------------------------------------------------------------- l=21 a=2 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUaUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCgUGUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=2 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGcACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGaGGGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=4 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGGAaA-------------------------------------------------------------------------------------------------------------------------- l=21 a=6 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UAuCGAUCUGCUUGUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------gACCGAUCUGCUUGUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=5 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UuCCGAUCUGCUUGUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=2 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UgCCGAUCUGCUUGUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=3 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCaGCUUGUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGaACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UAaCGAUCUGCUUGUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGaUUGUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGaGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGcGGGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCaUGUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGGACAg------------------------------------------------------------------------------------------------------------------------- l=22 a=66 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGGACAa------------------------------------------------------------------------------------------------------------------------- l=22 a=10 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGGACAU------------------------------------------------------------------------------------------------------------------------- l=22 a=28 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGGACAUg------------------------------------------------------------------------------------------------------------------------ l=23 a=1 
--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ACCGAUCUGCUUGUGGGA---------------------------------------------------------------------------------------------------------------------------- l=18 a=5 
--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ACCGAUCUGCUUGUGGGAC--------------------------------------------------------------------------------------------------------------------------- l=19 a=4 
--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ACCGAUCUGCUUGUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=20 a=9 
---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CCGAUCUGCUUGUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=19 a=3 
------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AUCUGCUUGUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=16 a=1 

mb-01111
ax-1010011
ku-11
ss-101101111110
fn-111
