species:   Pimic
pid:       PID1828
parent:    Pmic_miR-5
paralog:   
locus:     scaffold_57:72308-72667
matures:   ['UACCGAUCUGCCUGUGGGACA', 'UCCCACGGGAAGGUCGGUUGC']
srr:       SRX5082411
genome:    /Users/jax/+Genomes/Fungal_genomes/Pimic.Pismi1_AssemblyScaffolds.fa
alignment: /media/data/njohnson/+SeqLibraries/FunHP_libraries/Wong-Bajracharya2022-kz.SRX5082411.cram
call:      samtools view /media/data/njohnson/+SeqLibraries/FunHP_libraries/Wong-Bajracharya2022-kz.SRX5082411.cram scaffold_57:72308-72667

0 out of bounds
5668 alignments
5668 proper strand
4376 stranded perfect matches

                                                                                                                                                                                             ***********************   ***********************                                                                                                                          
CUUCGUCUUCAAAAUGGUGGAUCCAUGGAACUCAGUCUCUUGGAUGUCCCACGGGAAGGUCGGUUGCAGUACUACCGAUCUGCCUGUGGGACAUCAUCACGCACUGCAAACACCUACAGUGUUGCUCUCUUACCACGCAGGAGCCUUAUCUUGCAUUUCGAGGGCGGCAGGAACAUCGUGAUUCACGGAUGUCCCCCAAGAGGAUCGGUUGCAGUACUACCGAUCUGCUUGUGGGACAUCAUCACAUCAUCACGCAUACUGCAAAUAUCUACUGUGUUACUAUCUUACUAUGUGGGGAGAAUCUUGGAUGUUGAAAUGGCAAGAACAUUGUGAUUCACAAUCCGAUAGAUUUCCUUCCCG
.............(((((((....(((((((.((((......(((((((((((((.((((((((.........)))))))).))))))))))))).....((((((..........))))))(((((((.......((((((......)))))).....)))))))((((......((((((.....((((((((.((((.((((((((.........)))))))).)))).))))))))........))))))....))))........)))).))).)))).)))))))..((((((((((((((((..((((.(.((((.....)))).)))))..)))))..)))))..)))))).
------------------------------------------------------------------------UACCGAUCUGCCUGUGGGACA--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=21 a=1 c
----------------------------------------------UCCCACGGGAAGGUCGGUUGC----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=21 a=0 c*
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=2798 ma
-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UCCCCCAAGAGGAUCGGUUGC---------------------------------------------------------------------------------------------------------------------------------------------------- l=21 a=0 ma*

----------------------------------------------UCCCACGGGAAGaUCGGUUGCAGUAC------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ l=26 a=9 
------------------------------------------------------------------------UACCGAUCUGCCUGUGGGACA--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=21 a=1 (c)
---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UGUCCCCCAAGAaGAUCGGUUG----------------------------------------------------------------------------------------------------------------------------------------------------- l=22 a=1 
----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GUCCCCCAAGAaGAUCGGUUGCAGUAC----------------------------------------------------------------------------------------------------------------------------------------------- l=27 a=2 
-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UCCCCCAAGAaGAUCGGU------------------------------------------------------------------------------------------------------------------------------------------------------- l=18 a=3 
-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UCCCCCAAGAaGAUCGGUU------------------------------------------------------------------------------------------------------------------------------------------------------ l=19 a=2 
-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UCCCCCAAGAaGAUCGGUUG----------------------------------------------------------------------------------------------------------------------------------------------------- l=20 a=58 
-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UCCCCCAAGAaGAUCGGUUGC---------------------------------------------------------------------------------------------------------------------------------------------------- l=21 a=98 
-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UCCCCCAAGAaGAUCGGUUGCA--------------------------------------------------------------------------------------------------------------------------------------------------- l=22 a=19 
-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UCCCCCAAGAaGAUCGGUUGCAG-------------------------------------------------------------------------------------------------------------------------------------------------- l=23 a=148 
-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UCCCCCAAGAaGAUCGGUUGCAGU------------------------------------------------------------------------------------------------------------------------------------------------- l=24 a=69 
-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UCCCCCAAGAaGAUCGGUUGCAGUA------------------------------------------------------------------------------------------------------------------------------------------------ l=25 a=93 
-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UCCCCCAAGAaGAUCGGUUGCAGUAC----------------------------------------------------------------------------------------------------------------------------------------------- l=26 a=529 
-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UCCCCCAAGAaGAUCGGUUGCAGUACU---------------------------------------------------------------------------------------------------------------------------------------------- l=27 a=33 
-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UCCCCCAAGAaGAUCGGUUGCAGUACUA--------------------------------------------------------------------------------------------------------------------------------------------- l=28 a=11 
-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UCCCCCAAGAaGAUCGGUUGCAGUACUAC-------------------------------------------------------------------------------------------------------------------------------------------- l=29 a=3 
------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CCCCCAAGAaGAUCGGU------------------------------------------------------------------------------------------------------------------------------------------------------- l=17 a=2 
------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CCCCCAAGAaGAUCGGUUGC---------------------------------------------------------------------------------------------------------------------------------------------------- l=20 a=1 
------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CCCCCAAGAaGAUCGGUUGCA--------------------------------------------------------------------------------------------------------------------------------------------------- l=21 a=2 
------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CCCCCAAGAaGAUCGGUUGCAGU------------------------------------------------------------------------------------------------------------------------------------------------- l=23 a=2 
------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CCCCCAAGAaGAUCGGUUGCAGUA------------------------------------------------------------------------------------------------------------------------------------------------ l=24 a=1 
------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CCCCCAAGAaGAUCGGUUGCAGUAC----------------------------------------------------------------------------------------------------------------------------------------------- l=25 a=1 
------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CCCCCAAGAaGAUCGGUUGCAGUACU---------------------------------------------------------------------------------------------------------------------------------------------- l=26 a=1 
------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CCCCCAAGAaGAUCGGUUGCAGUACUA--------------------------------------------------------------------------------------------------------------------------------------------- l=27 a=2 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CCCCAAGAaGAUCGGUUGC---------------------------------------------------------------------------------------------------------------------------------------------------- l=19 a=2 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CCCCAAGAaGAUCGGUUGCAGUAC----------------------------------------------------------------------------------------------------------------------------------------------- l=24 a=3 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CCCCAAGAaGAUCGGUUGCAGUACU---------------------------------------------------------------------------------------------------------------------------------------------- l=25 a=11 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CCCCAAGAaGAUCGGUUGCAGUACUAC-------------------------------------------------------------------------------------------------------------------------------------------- l=27 a=1 
--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CCCAAGAaGAUCGGUUGCAGUACU---------------------------------------------------------------------------------------------------------------------------------------------- l=24 a=8 
--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CCCAAGAaGAUCGGUUGCAGUACUA--------------------------------------------------------------------------------------------------------------------------------------------- l=25 a=1 
---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CCAAGAaGAUCGGUUGCAGUACU---------------------------------------------------------------------------------------------------------------------------------------------- l=23 a=1 
----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CAAGAaGAUCGGUUGCAGUAC----------------------------------------------------------------------------------------------------------------------------------------------- l=21 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CAGUACUACCGAUCUGCUUGUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=27 a=1 
---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GUACUACCGAUCUGCUUGUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=25 a=2 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUG--------------------------------------------------------------------------------------------------------------------------------- l=14 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGG----------------------------------------------------------------------------------------------------------------------------- l=18 a=195 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAgCUGCUUGUGGG----------------------------------------------------------------------------------------------------------------------------- l=18 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACuGAUCUGCUUGUGGG----------------------------------------------------------------------------------------------------------------------------- l=18 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGGA---------------------------------------------------------------------------------------------------------------------------- l=19 a=754 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGaA---------------------------------------------------------------------------------------------------------------------------- l=19 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGGg---------------------------------------------------------------------------------------------------------------------------- l=19 a=2 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGgUCUGCUUGUGGGA---------------------------------------------------------------------------------------------------------------------------- l=19 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------aACCGAUCUGCUUGUGGGA---------------------------------------------------------------------------------------------------------------------------- l=19 a=2 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUaGUGGGA---------------------------------------------------------------------------------------------------------------------------- l=19 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCcGCUUGUGGGA---------------------------------------------------------------------------------------------------------------------------- l=19 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGGAC--------------------------------------------------------------------------------------------------------------------------- l=20 a=592 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGGAu--------------------------------------------------------------------------------------------------------------------------- l=20 a=42 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUaGUGGGAC--------------------------------------------------------------------------------------------------------------------------- l=20 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGGAg--------------------------------------------------------------------------------------------------------------------------- l=20 a=18 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------gACCGAUCUGCUUGUGGGAC--------------------------------------------------------------------------------------------------------------------------- l=20 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAaCUGCUUGUGGGAC--------------------------------------------------------------------------------------------------------------------------- l=20 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGGgC--------------------------------------------------------------------------------------------------------------------------- l=20 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------aACCGAUCUGCUUGUGGGAC--------------------------------------------------------------------------------------------------------------------------- l=20 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=2798 (ma)
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGcGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGGACu-------------------------------------------------------------------------------------------------------------------------- l=21 a=13 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGaGGGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=2 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGGAuA-------------------------------------------------------------------------------------------------------------------------- l=21 a=5 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGGACg-------------------------------------------------------------------------------------------------------------------------- l=21 a=9 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAaCUGCUUGUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------aACCGAUCUGCUUGUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=5 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UuCCGAUCUGCUUGUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGGAgA-------------------------------------------------------------------------------------------------------------------------- l=21 a=3 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UAaCGAUCUGCUUGUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGGACc-------------------------------------------------------------------------------------------------------------------------- l=21 a=7 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUaUGCUUGUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UAuCGAUCUGCUUGUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=2 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGuGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUcGGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUuGGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAgCUGCUUGUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCuAUCUGCUUGUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUaGGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUcGUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=2 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUgUGCUUGUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGGACAg------------------------------------------------------------------------------------------------------------------------- l=22 a=29 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGGACAa------------------------------------------------------------------------------------------------------------------------- l=22 a=10 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGGACAU------------------------------------------------------------------------------------------------------------------------- l=22 a=13 
--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ACCGAUCUGCUUGUGGGA---------------------------------------------------------------------------------------------------------------------------- l=18 a=3 
--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ACCGAUCUGCUUGUGGGAC--------------------------------------------------------------------------------------------------------------------------- l=19 a=1 
--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ACCGAUCUGCUUGUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=20 a=7 
---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CCGAUCUGCUUGUGGGA---------------------------------------------------------------------------------------------------------------------------- l=17 a=2 
---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CCGAUCUGCUUGUGGGAC--------------------------------------------------------------------------------------------------------------------------- l=18 a=1 
---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CCGAUCUGCUUGUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=19 a=3 
----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CGAUCUGCUUGUGGGA---------------------------------------------------------------------------------------------------------------------------- l=16 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UCUGCUUGUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=15 a=1 

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