species:   Artha
pid:       MI0019207
parent:    ath-MIR5635a
paralog:   
locus:     5:6926005-6926446
matures:   ['UGUUAAGGAGUGUUAACGGUG', 'CCAUUAACACUUCUUAACAGC']
srr:       SRR9216050
genome:    /Users/jax/+Genomes/Plant_genomes/Artha.TAIR10_chr_all.fa
alignment: /media/data/njohnson/+SeqLibraries/FunHP_libraries/Artha.SRR9216050.cram
call:      samtools view /media/data/njohnson/+SeqLibraries/FunHP_libraries/Artha.SRR9216050.cram 5:6926005-6926446

11 out of bounds
198 alignments
114 proper strand
97 stranded perfect matches

                                                                                                          **************************                                                                                                                                                                                                                **************************                                                                            
AUUAAUUAACACCGAGAAAAAUGUUAUUUUAUACCUGAACUUUCAAAAAGUGGCCAAAUUAACCGUGAAUUUUUGAAAUGAUCGUUUUAUACCUCAACAAAAAGUUGACUUCUAAUUUAACCUAUAAGUUAUCGUUGACCCGGCCAAAUCGACUCACCAUUAACACUUCUUAACAGCUCUCCUAACAGCGUAACUAACAACUGUUUUUGUCCUUAAACCAACAAUAACGGCUGUUAGGCCAUGUUUUGUAACGGCUGUUAGGAACGCUGUUAAGGAGUGUUAACGGUGAGUAUAUUUGGCCGGGUCAACGACAAAUUAUAGGUCAAAUUAGAAGUCAACGAUAAAUUAUAGGUUAAAUUAGAAGUCAACUUUUUGUUGAGGUAUAAAACGACCAUUUCAAAAGUUCACGGUUAAUUUGGCCAUUUUUUGAAAGUUCAGGUAU
......(((((..........)))))....((((((((((((((((((((((((((((((((((((((((((((((((((.((((((((((((((((((((((((((((((((((((((((((((((.(((((((((((((((((((((..(((((((.((((((((((((((((((..((((((((((....((((((.(((((.((((..........)))).))))).)))))).....(((....))).))))))))))..)))))))))))))))))).)))))))..))))))))))))))))(((.........)))...............))))).)))))))))))))))))))))))))))))))))))))))))))))).))))))))))))))))))))))))))))))))))))))))))))))))))
---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UGUUAAGGAGUGUUAACGGUG---------------------------------------------------------------------------------------------------------------------------------------------------------- l=21 a=1 c
------------------------------------------------------------------------------------------------------------------------------------------------------------CCAUUAACACUUCUUAACAGC------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=21 a=0 c*
------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AAAUUAUAGGUUAAAUUAGAAGUC---------------------------------------------------------------------------- l=24 a=6 ma
------------------------------------------------------------------------------------------------------------CUUCUAAUUUAACCUAUAAGUUAU---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=24 a=0 ma*

-------------------AAUGUUAUUUUAUACCUGAACUUU--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=24 a=2 
----------------------GUUAUUUUAUACCUGAACUUUCAA------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ l=24 a=2 
----------------------------------------------AAAGUGGCCAAAUUAACCGUGAAU------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ l=24 a=2 
------------------------------------------------AGUGGCCAAAUUAACCGUGAAUU----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=23 a=4 
------------------------------------------------gGUGGCCAAAUUAACCGUGAAUU----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=23 a=1 
-------------------------------------------------GUGGCCAAAUUAACCGUGAAUUU---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=23 a=3 
-------------------------------------------------GUGGCCAAAUUAACCGUGAAUUUU--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=24 a=2 
---------------------------------------------------GGCCAAAUUAACCGUGAAUUUUUGA------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ l=25 a=1 
----------------------------------------------------GCCAAAUUAACCGUGAAUUUUUG------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=23 a=1 
-----------------------------------------------------------UAACCGUGAAUUUUUGAAAUGAUC----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=24 a=1 
------------------------------------------------------------AACCGUGAAUUUUUGAA----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=17 a=1 
------------------------------------------------------------AACCGUGAAUUUUUGAAAUGA------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=21 a=1 
------------------------------------------------------------AACCGUGAAUUUUUGAAAcGAU------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ l=22 a=1 
------------------------------------------------------------AACCGUGAAUUUUUGAAAUGAU------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ l=22 a=1 
------------------------------------------------------------AACCGUGAAUUUUUGAAAUGAUC----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=23 a=2 
----------------------------------------------------------------------------------------------------------------------AACCUAUAAGUUAUCGUUGACC-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=22 a=2 
----------------------------------------------------------------------------------------------------------------------AACCUAUAAGUUAUCGUUGACCCG------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ l=24 a=3 
----------------------------------------------------------------------------------------------------------------------AgCCUAUAAGUUAUCGUUGACCCG------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ l=24 a=1 
------------------------------------------------------------------------------------------------------------------------CCUAUAAGUUAUCGUUGACCCGGC---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=24 a=1 
-------------------------------------------------------------------------------------------------------------------------CUAUAAGUUAUCGUUGACCCGGCa--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=24 a=1 
---------------------------------------------------------------------------------------------------------------------------AUAAGUUAUCGUUGACCCGGCCA-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=23 a=1 
----------------------------------------------------------------------------------------------------------------------------UAAGUUAUCGUUGACCCGGCCAAAc----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=25 a=1 
------------------------------------------------------------------------------------------------------------------------------AGUUAUCGUUGACCCGGCCAAAUC---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=24 a=1 
----------------------------------------------------------------------------------------------------------------------------------AUCGUUGACCCGGCCAAAUCGACU------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ l=24 a=3 
----------------------------------------------------------------------------------------------------------------------------------AUCGUUGACCCGGCCAAAUCGgCU------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ l=24 a=1 
----------------------------------------------------------------------------------------------------------------------------------AUCGUUGACCCGGCCAAAUCGACc------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ l=24 a=1 
----------------------------------------------------------------------------------------------------------------------------------------GAuCCGGCCAAAUCGACUCACCA------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=23 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------CCGGCCAAAUCGACUCACCA------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=20 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------CCGGCCAAAUCGACUCACCAUUA---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=23 a=2 
-------------------------------------------------------------------------------------------------------------------------------------------CCGGCCAAAUCGcCUCACCAUUA---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=23 a=1 
--------------------------------------------------------------------------------------------------------------------------------------------------AAUCGACUCACCAUUAACACUUCU-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=24 a=1 
----------------------------------------------------------------------------------------------------------------------------------------------------UCGACUCACCAUUAACACUUCUU------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=23 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------ACUCACCAUUAACACUUCUUA------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ l=21 a=1 
----------------------------------------------------------------------------------------------------------------------------------------------------------CACCAUUAACACUUCUUAACAGC------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=23 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------CAUUAACACUUCUUAACAGCUCUC--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=24 a=1 
-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AACUAACAACUGUUUUUGUCCUUA----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=24 a=1 
------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ACCAACAAUAACGGCUGUUAGGCC---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=24 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CCAACAAUAACGGCUGUUAGGCa---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=23 a=1 
---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UGUUAGGCCAUGUUUUGUAACGGC------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=24 a=1 
----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CCAUGUUUUGUAACGGCUGUU--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=21 a=1 
----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CCAUGUUUUGUAACGGCUGUUAG------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=23 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GUAACGGCUGUUAGG------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ l=15 a=1 
------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GGCUGUUAGGAACGCUGUUAAGG----------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=23 a=2 
---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UGUUAGGAACGCUGUUAAGGAGUG------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=24 a=2 
----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GUUAGGAACGCUGUUAAGG----------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=19 a=1 
----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GUUAGGAACGCaGUUAAGG----------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=19 a=1 
----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GUUAGGAACGCUGUUAAGGAGUGU------------------------------------------------------------------------------------------------------------------------------------------------------------------ l=24 a=4 
---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UGUUAAGGAGUGUUAACGGUG---------------------------------------------------------------------------------------------------------------------------------------------------------- l=21 a=1 (c)
---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UGUUAAGGAGUGUUAACGGUGAG-------------------------------------------------------------------------------------------------------------------------------------------------------- l=23 a=1 
---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UGUUAAGGAGUGUUAACGGUGAGU------------------------------------------------------------------------------------------------------------------------------------------------------- l=24 a=3 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AAGGAGUGUUAACGGUGAGUAUA---------------------------------------------------------------------------------------------------------------------------------------------------- l=23 a=1 
--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AGGAGUGUUAACGGUGAGUAUAUU-------------------------------------------------------------------------------------------------------------------------------------------------- l=24 a=1 
--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AGGAGUGUUAACGGUGgGUAUAUU-------------------------------------------------------------------------------------------------------------------------------------------------- l=24 a=1 
---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GGAGUGUUAACGG------------------------------------------------------------------------------------------------------------------------------------------------------------ l=13 a=1 
------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GUGUUAACGGUGAGUAUAUUUGGC---------------------------------------------------------------------------------------------------------------------------------------------- l=24 a=2 
--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GUUAACGGUGAGUAUAUUUGGC---------------------------------------------------------------------------------------------------------------------------------------------- l=22 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GUAUAUUUGGCCGGG------------------------------------------------------------------------------------------------------------------------------------------ l=15 a=2 
--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UAUAUUUGGCCGGGUCAACGACA--------------------------------------------------------------------------------------------------------------------------------- l=23 a=1 
--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UAUAUUUGGCCGGGUCAACGACAc-------------------------------------------------------------------------------------------------------------------------------- l=24 a=1 
-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CCGGGUCAACGACAAAUUAUAG------------------------------------------------------------------------------------------------------------------------- l=22 a=1 
-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CCGGGUCAACGACAAAUUAUAGGU----------------------------------------------------------------------------------------------------------------------- l=24 a=1 
------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AAAUUAUAGGUCAAAUUAGAAGUC---------------------------------------------------------------------------------------------------------- l=24 a=1 
------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------gAAUUAUAGGUCAAAUUAGAAGUC---------------------------------------------------------------------------------------------------------- l=24 a=1 
-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AUAGGUCAAAUUAGAAGUCAACa------------------------------------------------------------------------------------------------------ l=23 a=1 
-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AUAGGUCAAAUUAGAAGUCAACGA----------------------------------------------------------------------------------------------------- l=24 a=2 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AGGUCAAAUUAGAAGUCAACGAUA--------------------------------------------------------------------------------------------------- l=24 a=4 
--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GGUCAgAUUAGAAGUCAACG------------------------------------------------------------------------------------------------------ l=20 a=1 
--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GGUCAAAUUAGAAGUCAACG------------------------------------------------------------------------------------------------------ l=20 a=2 
--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GGUCAAAUUAGAAGUCAACGAUA--------------------------------------------------------------------------------------------------- l=23 a=4 
------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AAAUUAUAGGUUAAAUUAGAAGUC---------------------------------------------------------------------------- l=24 a=6 (ma)
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AAUUAUAGGUUAAAUUAGAAGUC---------------------------------------------------------------------------- l=23 a=1 
--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AUUAUAGGUUAAAUUAGAAGUC---------------------------------------------------------------------------- l=22 a=1 
---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ACGACCAUUUCAAAAaUUCAC---------------------------------- l=21 a=1 
--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AAAAGUUCACGGUUAAUUUGGC---------------------- l=22 a=1 
-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AGUUCACGGUUAAUUUGGCCAUU------------------ l=23 a=1 
------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GUUCACGGUUAAUUUGGCCAUU------------------ l=22 a=1 

mb-01011
ax-1010011
ku-01
ss-111100111100
fn-101
