species:   Rhirr
pid:       PID1183
parent:    Locus_1596
paralog:   
locus:     scaffold_245:162243-162808
matures:   ['UAACAGAAGUUGUUGGAUU', 'ACCAACACCUAAUUUGUUACC']
srr:       ERR2841784
genome:    /Users/jax/+Genomes/Fungal_genomes/Rhirr.Rhiir2_1_AssemblyScaffolds.fa
alignment: /media/data/njohnson/+SeqLibraries/FunHP_libraries/Silvestri2019-js.ERR2841784.cram
call:      samtools view /media/data/njohnson/+SeqLibraries/FunHP_libraries/Silvestri2019-js.ERR2841784.cram scaffold_245:162243-162808

0 out of bounds
67 alignments
64 proper strand
64 stranded perfect matches

                                              ***********************                           *********************                                                                                                                                                                                                                                                                                                                                                                                                                                                                 
UAAUGGAUUAAAUAAACGAGAAAAGGACGACUUAUCAUUUCGAGCAAAACCAACACCUAAUUUGUUACCUUACCGUCCAAGAAAAUCAGCUAAACCUAUAACAGAAGUUGUUGGAUUUAAGCUCCAUACUGAUGCACGCCUUGAAAAACGCAAAACAUAUGAUGAACAGAGAAACUUACGUGACCAAGAAGAAAAGAUACUAAAAGAACGAAAACAAAUAGAGGAGGUACGAUAUAUAAAACAUUUAUAUUUGAAACACGAUGAUCAUAAGUAAAUUCGAAAUACAUUUAAAAAUUAUAUUAAGGAACGUAAUAAACAACAAAUUCGUCAAUUGAGAACUGAAUUAAUACACCAUGCUCAGCCAGCCAAAAGGUAUGCGCCCGUCAAAAUAGAAUUUGCAAACCGAAAAGUAACCAAACCCGUUUCACCACUGAUUGGGGAGAAAAGGCGUAAAAAAUUACAAGCAUUAAAUGAAUCCAAUAUUCGUAAUGCAAUGUCGGAGAACGCUUCAACAGCAAAAAUAGUUCCCCAAUCCAAAAAUAAUAAUAGGAAGCUAUAGAAAAGAA
.(((((................((((.((...(((((....(((((((.((((((.((..(((((((...............................))))))))).)))))).)))..)))).....)))))..)))))).................(((((((.........((((((..((............................................(((.(((((((...)))))))))).....(((...............)))........................)).))))))...........)))))))(((((........))))).......(((.....))).....(((.((((....((......))...)))).)))...............)))))........((((((((((.....((((((....))))..(((((..((((((.....)))))))))))..(((.((((....)))).)))))........))))))))))...........((((....)))).........
--------------------------------------------------------------------------------------------------UAACAGAAGUUGUUGGAUU----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=19 a=21 c
------------------------------------------------ACCAACACCUAAUUUGUUACC----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=21 a=2 c*
--------------------------------------------------------------------------------------------------UAACAGAAGUUGUUGGAUU----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=19 a=21 ma
------------------------------------------------ACCAACACCUAAUUUGUUACC----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=21 a=2 ma*

--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AUGCAAUGUCGGAGAA-------------------------------------------------------------- l=16 a=1 
----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CUGAUUGGGGAGAAAAGGCG-------------------------------------------------------------------------------------------------------------------- l=20 a=1 
------------------------------------------------------------------------------------------------------------------------------------------------------------------UGAACAGAGAAACUUACGUGACCA-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=24 a=1 
---------------------------------------------------------------------------------------------------------------------------------------------UGAAAAACGCAAAACAUAUGAUG------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ l=23 a=1 
------------------------------------------------------------------------------------------------------------------------------------UGCACGCCUUGAAA------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ l=14 a=1 
---------------------------------------------------------------------------------------------------------------------UAAGCUCCAUACUGAUG------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ l=17 a=1 
-------------------------------------------------------------------------------------------------------------------UUUAAGCUCCAUACUGAUG------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ l=19 a=1 
------------------------------------------------------------------------------------------------------------UGUUGGAUUUAAG------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=13 a=2 
------------------------------------------------------------------------------------------------------------UGUUGGAUUUAAGCU----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=15 a=1 
-----------------------------------------------------------------------------------------------------------UUGUUGGAUUUAAGCU----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=16 a=1 
---------------------------------------------------------------------------------------------------------AGUUGUUGGAUUUAAGCUC---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=19 a=1 
---------------------------------------------------------------------------------------------------------AGUUGUUGGAUUUAAGCUCCAUACUGAUGCACGCCU----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=36 a=1 
-------------------------------------------------------------------------------------------------------GAAGUUGUUGGAUU----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=14 a=1 
--------------------------------------------------------------------------------------------------UAACAGAAGUUGUU---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=14 a=1 
--------------------------------------------------------------------------------------------------UAACAGAAGUUGUUGGA------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=17 a=1 
--------------------------------------------------------------------------------------------------UAACAGAAGUUGUUGGAU------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ l=18 a=1 
--------------------------------------------------------------------------------------------------UAACAGAAGUUGUUGGAUU----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=19 a=21 (c,ma)
--------------------------------------------------------------------------------------------------UAACAGAAGUUGUUGGAUUUA--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=21 a=1 
--------------------------------------------------------------------------------------------------UAACAGAAGUUGUUGGAUUUAAGCU----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=25 a=4 
------------------------------------------------------------------------------------------------UAUAACAGAAGUUGUUGGAU------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ l=20 a=2 
------------------------------------------------------------------------------------------UAAACCUAUAACAGAAGUUGUU---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=22 a=1 
------------------------------------------------------------------------------------------UAAACCUAUAACAGAAGUUGUUGG-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=24 a=1 
-------------------------------------------------------------UUGUUACCUUACCG----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=14 a=1 
-------------------------------------------------------------UUGUUACCUUACCGUCCAAG----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=20 a=2 
------------------------------------------------ACCAACACCUAAUUUGUUACC----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=21 a=2 (c*,ma*)
------------------------------------------------ACCAACACCUAAUUUGUUACCU---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=22 a=1 
------------------------------------------AGCAAAACCAACACC----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=15 a=1 
------------------------------------------AGCAAAACCAACACCU---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=16 a=3 
---------------------------------------UCGAGCAAAACCAACACCUAA-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=21 a=1 
----------------CGAGAAAAGGACGACU------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ l=16 a=1 
---------------ACGAGAAAAGGACGACU------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ l=17 a=1 
-------------AAACGAGAAAAGGACG--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=16 a=1 
------------UAAACGAGAAAAGGACG--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=17 a=2 
------------UAAACGAGAAAAGGACGA-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=18 a=1 

mb-01011
ax-1110001
ku-01
ss-101001111101
fn-111
