species:   Artha
pid:       MI0019215
parent:    ath-MIR5642a
paralog:   
locus:     3:14196774-14197147
matures:   ['UCUCGCGCUUGUACGGCUUU', 'GGCUGUCCCGAGUGUGAGCGA']
srr:       SRR9216049
genome:    /Users/jax/+Genomes/Plant_genomes/Artha.TAIR10_chr_all.fa
alignment: /media/data/njohnson/+SeqLibraries/FunHP_libraries/Artha.SRR9216049.cram
call:      samtools view /media/data/njohnson/+SeqLibraries/FunHP_libraries/Artha.SRR9216049.cram 3:14196774-14197147

106 out of bounds
97 alignments
82 proper strand
66 stranded perfect matches

      *****************************                                                                                                                                                                                                                                                                                                                 ******************************    
CAUGGAUCCGCCUAGGCUGUCCCGAGUGUGAGCGAGGUGUGAGUGUCGCCCAUGGGCAUCGACACCUUGCGGCUAGGAACUGGAACGAGACGGGUAGCAAAGAUUUCGAGUAGCACUUCAUACUACCGUGGGUUUUUUAAACCUUCCCCUAGUUUUGUUGAUGUUAUUCCGAGAAUUAGCAAACCGUAACGAAGAUGUUCUUGGCAACCAUCUUUUGAUGGGAGUCCGGCUGUUCGAAAGCCGGCCAAGGGUGAUGAACGAAAUGUGAACCCUUGUCUCGCCUAGGUUGGAUGGGCGUGCUUCGUUGGAAAGCAUGGAUCCGCCUAGGCUGUCCCGAAGGUAUCUCGCGCUUGUACGGCUUUGGCUCGGAUUCG
...(((((((((.(((((((..((((((((((((((((((..(((((.......)))))..))))))))).(((((((((.....((..((((...((.((..(((((((((((((..((.((((....((((((...)))))).....))))..))..).))))))).))))).)).))...))))..)).....)))))))))..(((((....)))))..(.((((((.......)))))))(((((((.....((.....))..)))))))....((((((((.((((...((((((((....).))))))).))))))))))))...((....))....))))))))).))))))).)))..)))))).
------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UCUCGCGCUUGUACGGCUUU------------ l=20 a=0 c
--------------GGCUGUCCCGAGUGUGAGCGA--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=21 a=0 c*
------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UCUCGCGCUUGUACGGCUUUGGCUCGGA---- l=28 a=11 ma
--------CGCCUAGGCUGUCCCGAGUGUGAGCGA--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=27 a=0 ma*

---------------------------------------------------gUGGGCAUCGACACC-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=15 a=1 
-----------------------------------------------------------------CUUGCGGCUAGGAACUGGAACGg---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=23 a=1 
-------------------------------------------------------------------UGCGGCUAGGAACUGG--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=16 a=1 
-------------------------------------------------------------------UGCGGCUAGGAACUGGAACGAGA-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=23 a=1 
---------------------------------------------------------------------CGGCUAGGAACUGGAACGAGAC------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=22 a=1 
-------------------------------------------------------------------------UAGGAACUGGAACGAGACGGGUAG------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=24 a=1 
--------------------------------------------------------------------------AGGAACUGGAACGAGACGGGU--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=21 a=1 
---------------------------------------------------------------------------GGAACUGGAACGAGACGa----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=18 a=1 
---------------------------------------------------------------------------GGAACUGGAACGAGACGGGUA-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=21 a=1 
-----------------------------------------------------------------------------AACUGGAACGAGACGGGUAGCAAAGAUU----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=28 a=1 
----------------------------------------------------------------------------------GAACGAGACGGGUAGCAAAGAUUUCGAGU----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=29 a=1 
-------------------------------------------------------------------------------------CGAGACGGGUAGCAAAGAU------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ l=19 a=1 
---------------------------------------------------------------------------------------AGACGGGUAGCAAAGAUUUCa-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=21 a=1 
---------------------------------------------------------------------------------------AGACGGGUAGCAAAGAUUUCGAGa----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=24 a=1 
---------------------------------------------------------------------------------------AGACGGGUAGCAAgGAUUUCGAGU----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=24 a=1 
---------------------------------------------------------------------------------------AGACGGGUAGCAAAGAUUUCGAGU----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=24 a=3 
-------------------------------------------------------------------------------------------------------UUUCGAGUAGCACUUCA-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=17 a=1 
---------------------------------------------------------------------------------------------------------------AGCACUUCAUACUACCGUGGGUUU----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=24 a=1 
------------------------------------------------------------------------------------------------------------------------------------------AAACCUUCCCCUAGUUUUGUUGAc-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=24 a=1 
------------------------------------------------------------------------------------------------------------------------------------------------------AGUUUUGUUGAUGUUAUUCCGAGA-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=24 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------GUUUUGUUGAUGUUAUUCCGAGA-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=23 a=1 
---------------------------------------------------------------------------------------------------------------------------------------------------------UUUGUUGAUGUUAUUCCGAGAAUUAGCAAACCGa------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=34 a=1 
----------------------------------------------------------------------------------------------------------------------------------------------------------UUGUUGAUGUUAUUCCGAGA-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=20 a=1 
------------------------------------------------------------------------------------------------------------------------------------------------------------GUUGAUGUUAUUCCGAGA-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=18 a=1 
----------------------------------------------------------------------------------------------------------------------------------------------------------------------UUCCGAGAAUUAGCAAACCGUAACGAAGAU---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=30 a=1 
--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UAGCAAACCGUAACGAAGAUG--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=21 a=2 
--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ACGAAGAUGUUCUU---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=14 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AUGGGAGUCCGGCUGUUCGAAAGC------------------------------------------------------------------------------------------------------------------------------------- l=24 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------gUGGGAGUCCGGCUGUUCGAAAGC------------------------------------------------------------------------------------------------------------------------------------- l=24 a=1 
---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CCGGCUGUUCGAAAGC------------------------------------------------------------------------------------------------------------------------------------- l=16 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GAAAGCCGGCCAAGGGUGAUGAACGAAAUGUGAAC-------------------------------------------------------------------------------------------------------- l=35 a=1 
---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GCCAAGGGUGAUGAACGAAAUG------------------------------------------------------------------------------------------------------------- l=22 a=1 
---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GCCAAGGGUGAUGAACGAAAUGU------------------------------------------------------------------------------------------------------------ l=23 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AGGGUGAUGAACGAAAUGUGAAC-------------------------------------------------------------------------------------------------------- l=23 a=1 
----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AACGAAAUGUGAACCCUUGUCUCGCCUAGGUU-------------------------------------------------------------------------------------- l=32 a=1 
---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GUAUCUCGCGCUUGUACGGCUUUGGCUCGGA---- l=31 a=1 
-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AaCUCGCGCUUGUACGGCUUUGGCUCGGAUUC- l=32 a=1 
------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UCUCGCGCUUGUACGGCUUUGGCUC------- l=25 a=1 
------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------cCUCGCGCUUGUACGGCUUUGGCUCG------ l=26 a=1 
------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UCUCGCGCUUGUACGGCUUUGGCUCG------ l=26 a=6 
------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UCUCGCGCUUGUACGGCUUUGGCUCa------ l=26 a=1 
------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UCUCGCGCUaGUACGGCUUUGGCUCGG----- l=27 a=1 
------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UCUCGCGCUUGUACGGCUUUGGCUCGG----- l=27 a=1 
------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UCUCGCGCUUGUACGGCUUUGGCUCGGA---- l=28 a=11 (ma)
------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UCUCGCGCUaGUACGGCUUUGGCUCGGAU--- l=29 a=1 
------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UCUCGCGCUUGUACGGCUUUGGCUCGGAU--- l=29 a=1 
------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UCUCGCGCUUGUACGGCUUUGGCUCGGAUU-- l=30 a=3 
------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UCUCGCGCUUGUACGGCUUUGGCUCGGAUUC- l=31 a=2 
------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UCUCGCGCUUGUACGGCUUUGGCUCGGAUUCG l=32 a=1 
---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CGCGCUUGUACGGCUUUGGCUCGGAUUC- l=28 a=1 
----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GCGCUUGUACGaCUUUGGCUCGG----- l=23 a=1 
------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GCUUGUACGGCUUUGGCUCGGAUU-- l=24 a=5 
------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GCUUGUACGGCcUUGGCUCGGAUUCG l=26 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CUUGUACGGCUUUGGCUCGGAUU-- l=23 a=2 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CUUGUACGGCUUUGGCUCGGAUUC- l=24 a=1 
---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GCUUUGGCUCGGAUU-- l=15 a=1 

mb-01011
ax-1000001
ku-01
ss-101001101000
fn-111
