species:   Pimic
pid:       PID1828
parent:    Pmic_miR-5
paralog:   
locus:     scaffold_57:72308-72667
matures:   ['UACCGAUCUGCCUGUGGGACA', 'UCCCACGGGAAGGUCGGUUGC']
srr:       SRX5082464
genome:    /Users/jax/+Genomes/Fungal_genomes/Pimic.Pismi1_AssemblyScaffolds.fa
alignment: /media/data/njohnson/+SeqLibraries/FunHP_libraries/Wong-Bajracharya2022-kz.SRX5082464.cram
call:      samtools view /media/data/njohnson/+SeqLibraries/FunHP_libraries/Wong-Bajracharya2022-kz.SRX5082464.cram scaffold_57:72308-72667

0 out of bounds
7385 alignments
7379 proper strand
6030 stranded perfect matches

                                                                                                                                                                                             ***********************   ***********************                                                                                                                          
CUUCGUCUUCAAAAUGGUGGAUCCAUGGAACUCAGUCUCUUGGAUGUCCCACGGGAAGGUCGGUUGCAGUACUACCGAUCUGCCUGUGGGACAUCAUCACGCACUGCAAACACCUACAGUGUUGCUCUCUUACCACGCAGGAGCCUUAUCUUGCAUUUCGAGGGCGGCAGGAACAUCGUGAUUCACGGAUGUCCCCCAAGAGGAUCGGUUGCAGUACUACCGAUCUGCUUGUGGGACAUCAUCACAUCAUCACGCAUACUGCAAAUAUCUACUGUGUUACUAUCUUACUAUGUGGGGAGAAUCUUGGAUGUUGAAAUGGCAAGAACAUUGUGAUUCACAAUCCGAUAGAUUUCCUUCCCG
.............(((((((....(((((((.((((......(((((((((((((.((((((((.........)))))))).))))))))))))).....((((((..........))))))(((((((.......((((((......)))))).....)))))))((((......((((((.....((((((((.((((.((((((((.........)))))))).)))).))))))))........))))))....))))........)))).))).)))).)))))))..((((((((((((((((..((((.(.((((.....)))).)))))..)))))..)))))..)))))).
------------------------------------------------------------------------UACCGAUCUGCCUGUGGGACA--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=21 a=1 c
----------------------------------------------UCCCACGGGAAGGUCGGUUGC----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=21 a=0 c*
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=2771 ma
-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UCCCCCAAGAGGAUCGGUUGC---------------------------------------------------------------------------------------------------------------------------------------------------- l=21 a=0 ma*

-----UCUUCAAAAUGGUGGAUCCAUGGAACUCAGUCU---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=33 a=1 
----------------------------------------------UCCCACGGGAAGaUCGGUUGCAGU-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=24 a=1 
----------------------------------------------UCCCACGGGAAGaUCGGUUGCAGUAC------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ l=26 a=5 
------------------------------------------------------------------------UACCGAUCUGCCUGUGGGACA--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=21 a=1 (c)
---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UGUCCCCCAAGAaGAUCGGUUGCAGUACUAC-------------------------------------------------------------------------------------------------------------------------------------------- l=31 a=1 
----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GUCCCCCAAGAaGAUCGGUUGCAGUAC----------------------------------------------------------------------------------------------------------------------------------------------- l=27 a=2 
-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UCCCCCAAGAaGAUCGGUUG----------------------------------------------------------------------------------------------------------------------------------------------------- l=20 a=28 
-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UCCCCCAAGAaGAUCGGUUGC---------------------------------------------------------------------------------------------------------------------------------------------------- l=21 a=60 
-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UCCCCCAAGAaGAUCGGUUGCA--------------------------------------------------------------------------------------------------------------------------------------------------- l=22 a=7 
-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UCCCCCAAGAaGAUCGGUUGCAG-------------------------------------------------------------------------------------------------------------------------------------------------- l=23 a=148 
-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UCCCCCAAGAaGAUCGGUUGCAGU------------------------------------------------------------------------------------------------------------------------------------------------- l=24 a=43 
-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UCCCCCAAGAaGAUCGGUUGCAGUA------------------------------------------------------------------------------------------------------------------------------------------------ l=25 a=36 
-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UCCCCCAAGAaGAUCGGUUGCAGUAC----------------------------------------------------------------------------------------------------------------------------------------------- l=26 a=148 
-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UCCCCCAAGAaGAUCGGUUGCAGUACU---------------------------------------------------------------------------------------------------------------------------------------------- l=27 a=45 
-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UCCCCCAAGAaGAUCGGUUGCAGUACUA--------------------------------------------------------------------------------------------------------------------------------------------- l=28 a=10 
-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UCCCCCAAGAaGAUCGGUUGCAGUACUACC------------------------------------------------------------------------------------------------------------------------------------------- l=30 a=1 
------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CCCCCAAGAaGAUCGGUUGC---------------------------------------------------------------------------------------------------------------------------------------------------- l=20 a=1 
------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CCCCCAAGAaGAUCGGUUGCAGUA------------------------------------------------------------------------------------------------------------------------------------------------ l=24 a=1 
------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CCCCCAAGAaGAUCGGUUGCAGUACU---------------------------------------------------------------------------------------------------------------------------------------------- l=26 a=3 
------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CCCCCAAGAaGAUCGGUUGCAGUACUACC------------------------------------------------------------------------------------------------------------------------------------------- l=29 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CCCCAAGAaGAUCGGUUGCAGU------------------------------------------------------------------------------------------------------------------------------------------------- l=22 a=2 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CCCCAAGAaGAUCGGUUGCAGUA------------------------------------------------------------------------------------------------------------------------------------------------ l=23 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CCCCAAGAaGAUCGGUUGCAGUACU---------------------------------------------------------------------------------------------------------------------------------------------- l=25 a=8 
--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CCCAAGAaGAUCGGUUGCAGUACU---------------------------------------------------------------------------------------------------------------------------------------------- l=24 a=6 
--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CCCAAGAaGAUCGGUUGCAGUACUA--------------------------------------------------------------------------------------------------------------------------------------------- l=25 a=2 
--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AaGAUCGGUUGCAGUAC----------------------------------------------------------------------------------------------------------------------------------------------- l=17 a=1 
---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GUACUACCGAUCUGCUUGUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=25 a=3 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUG--------------------------------------------------------------------------------------------------------------------------------- l=14 a=5 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------gACCGAUCUGCUUG--------------------------------------------------------------------------------------------------------------------------------- l=14 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGG------------------------------------------------------------------------------------------------------------------------------ l=17 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGG----------------------------------------------------------------------------------------------------------------------------- l=18 a=286 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------gACCGAUCUGCUUGUGGG----------------------------------------------------------------------------------------------------------------------------- l=18 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUuGG----------------------------------------------------------------------------------------------------------------------------- l=18 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGGA---------------------------------------------------------------------------------------------------------------------------- l=19 a=1998 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGGg---------------------------------------------------------------------------------------------------------------------------- l=19 a=13 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACaGAUCUGCUUGUGGGA---------------------------------------------------------------------------------------------------------------------------- l=19 a=5 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGuGA---------------------------------------------------------------------------------------------------------------------------- l=19 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAgCUGCUUGUGGGA---------------------------------------------------------------------------------------------------------------------------- l=19 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------cACCGAUCUGCUUGUGGGA---------------------------------------------------------------------------------------------------------------------------- l=19 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCaUGUGGGA---------------------------------------------------------------------------------------------------------------------------- l=19 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UgCCGAUCUGCUUGUGGGA---------------------------------------------------------------------------------------------------------------------------- l=19 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------gACCGAUCUGCUUGUGGGA---------------------------------------------------------------------------------------------------------------------------- l=19 a=2 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUaUGGGA---------------------------------------------------------------------------------------------------------------------------- l=19 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUaUGCUUGUGGGA---------------------------------------------------------------------------------------------------------------------------- l=19 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UuCCGAUCUGCUUGUGGGA---------------------------------------------------------------------------------------------------------------------------- l=19 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGcUCUGCUUGUGGGA---------------------------------------------------------------------------------------------------------------------------- l=19 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGGAC--------------------------------------------------------------------------------------------------------------------------- l=20 a=945 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGGAg--------------------------------------------------------------------------------------------------------------------------- l=20 a=166 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGGAu--------------------------------------------------------------------------------------------------------------------------- l=20 a=335 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UgCCGAUCUGCUUGUGGGAC--------------------------------------------------------------------------------------------------------------------------- l=20 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUaUGGGAC--------------------------------------------------------------------------------------------------------------------------- l=20 a=2 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGuGAC--------------------------------------------------------------------------------------------------------------------------- l=20 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUcUGGGAC--------------------------------------------------------------------------------------------------------------------------- l=20 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUaGUGGGAC--------------------------------------------------------------------------------------------------------------------------- l=20 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------gACCGAUCUGCUUGUGGGAC--------------------------------------------------------------------------------------------------------------------------- l=20 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UAaCGAUCUGCUUGUGGGAC--------------------------------------------------------------------------------------------------------------------------- l=20 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=2771 (ma)
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------aACCGAUCUGCUUGUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=8 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGGAgA-------------------------------------------------------------------------------------------------------------------------- l=21 a=7 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUaCUUGUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGaGGGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=7 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGuGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=5 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGaGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGuUUGUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCgGCUUGUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGGACu-------------------------------------------------------------------------------------------------------------------------- l=21 a=5 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGGgCA-------------------------------------------------------------------------------------------------------------------------- l=21 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGGACc-------------------------------------------------------------------------------------------------------------------------- l=21 a=12 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGGACg-------------------------------------------------------------------------------------------------------------------------- l=21 a=13 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UAuCGAUCUGCUUGUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=2 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGGAaA-------------------------------------------------------------------------------------------------------------------------- l=21 a=2 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UgCCGAUCUGCUUGUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUaUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGcGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=2 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGGAuA-------------------------------------------------------------------------------------------------------------------------- l=21 a=5 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------gACCGAUCUGCUUGUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUaUGCUUGUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=4 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------cACCGAUCUGCUUGUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUcUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCaUGUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=2 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUcCUUGUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACaGAUCUGCUUGUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUcGGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UuCCGAUCUGCUUGUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUaGUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UAaCGAUCUGCUUGUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=21 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGGACAg------------------------------------------------------------------------------------------------------------------------- l=22 a=132 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGGACAa------------------------------------------------------------------------------------------------------------------------- l=22 a=20 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGuGACAU------------------------------------------------------------------------------------------------------------------------- l=22 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGGACAU------------------------------------------------------------------------------------------------------------------------- l=22 a=13 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGGACAUg------------------------------------------------------------------------------------------------------------------------ l=23 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGGACAUu------------------------------------------------------------------------------------------------------------------------ l=23 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGGACAgC------------------------------------------------------------------------------------------------------------------------ l=23 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UACCGAUCUGCUUGUGGGACAUa------------------------------------------------------------------------------------------------------------------------ l=23 a=1 
--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ACCGAUCUGCUUGUGGGA---------------------------------------------------------------------------------------------------------------------------- l=18 a=3 
--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ACCGAUCUGCUUGUGGGACA-------------------------------------------------------------------------------------------------------------------------- l=20 a=2 
------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AUCUGCUUGUGGGAC--------------------------------------------------------------------------------------------------------------------------- l=15 a=1 

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