species:   Rhirr
pid:       PID1183
parent:    Locus_1596
paralog:   
locus:     scaffold_245:162243-162808
matures:   ['UAACAGAAGUUGUUGGAUU', 'ACCAACACCUAAUUUGUUACC']
srr:       ERR2841785
genome:    /Users/jax/+Genomes/Fungal_genomes/Rhirr.Rhiir2_1_AssemblyScaffolds.fa
alignment: /media/data/njohnson/+SeqLibraries/FunHP_libraries/Silvestri2019-js.ERR2841785.cram
call:      samtools view /media/data/njohnson/+SeqLibraries/FunHP_libraries/Silvestri2019-js.ERR2841785.cram scaffold_245:162243-162808

0 out of bounds
47 alignments
42 proper strand
40 stranded perfect matches

                                          ***************************                           ***************************                                                                                                                                                                                                                                                                                                                                                                                                                                                           
UAAUGGAUUAAAUAAACGAGAAAAGGACGACUUAUCAUUUCGAGCAAAACCAACACCUAAUUUGUUACCUUACCGUCCAAGAAAAUCAGCUAAACCUAUAACAGAAGUUGUUGGAUUUAAGCUCCAUACUGAUGCACGCCUUGAAAAACGCAAAACAUAUGAUGAACAGAGAAACUUACGUGACCAAGAAGAAAAGAUACUAAAAGAACGAAAACAAAUAGAGGAGGUACGAUAUAUAAAACAUUUAUAUUUGAAACACGAUGAUCAUAAGUAAAUUCGAAAUACAUUUAAAAAUUAUAUUAAGGAACGUAAUAAACAACAAAUUCGUCAAUUGAGAACUGAAUUAAUACACCAUGCUCAGCCAGCCAAAAGGUAUGCGCCCGUCAAAAUAGAAUUUGCAAACCGAAAAGUAACCAAACCCGUUUCACCACUGAUUGGGGAGAAAAGGCGUAAAAAAUUACAAGCAUUAAAUGAAUCCAAUAUUCGUAAUGCAAUGUCGGAGAACGCUUCAACAGCAAAAAUAGUUCCCCAAUCCAAAAAUAAUAAUAGGAAGCUAUAGAAAAGAA
.(((((................((((.((...(((((....(((((((.((((((.((..(((((((...............................))))))))).)))))).)))..)))).....)))))..)))))).................(((((((.........((((((..((............................................(((.(((((((...)))))))))).....(((...............)))........................)).))))))...........)))))))(((((........))))).......(((.....))).....(((.((((....((......))...)))).)))...............)))))........((((((((((.....((((((....))))..(((((..((((((.....)))))))))))..(((.((((....)))).)))))........))))))))))...........((((....)))).........
--------------------------------------------------------------------------------------------------UAACAGAAGUUGUUGGAUU----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=19 a=1 c
------------------------------------------------ACCAACACCUAAUUUGUUACC----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=21 a=0 c*
--------------------------------------------------------------------------------------------------UAACAGAAGUUGUUGGAUUUAAGCU----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=25 a=10 ma
--------------------------------------------CAAAACCAACACCUAAUUUGUUACC----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=25 a=0 ma*

----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UCACCACUGAUUG--------------------------------------------------------------------------------------------------------------------------------- l=13 a=1 
----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GCCAAAAGGUAUGC-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=14 a=1 
-----------------------------------------------------------------------------------------------------------------------------------------------------------------------AGAGAAACUUACGUGACCAAGAAG--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=24 a=1 
---------------------------------------------------------------------------------------------------------------------------------------------------------------------ACAGAGAAACUUACGUGACCAAG------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ l=23 a=1 
------------------------------------------------------------------------------------------------------------------------------------------------------------------UGAACAGAGAAACUUACGUGACC--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=23 a=2 
---------------------------------------------------------------------------------------------------------------------UAAGCUCCAUACUGAUGC----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=18 a=1 
--------------------------------------------------------------------------------------------------------------------UUAAGCUCCAUACUGAUGCACGCCU----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=25 a=2 
-------------------------------------------------------------------------------------------------------------------UUUAAGCUCCAUACUGAUG------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ l=19 a=1 
-----------------------------------------------------------------------------------------------------------UUGUUGGAUUUAAGCU----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=16 a=1 
--------------------------------------------------------------------------------------------------------AAGUUGUUGGAUUUAAG------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=17 a=1 
------------------------------------------------------------------------------------------------------AGAAGUUGUUGGAUUUAAGCU----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=21 a=1 
--------------------------------------------------------------------------------------------------UAACAGAAGUUGUUGGAU------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ l=18 a=1 
--------------------------------------------------------------------------------------------------UAACAGAAGUUGUUGGAUU----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=19 a=1 (c)
--------------------------------------------------------------------------------------------------UAACAGAAGUUGUUGGAUUUA--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=21 a=1 
--------------------------------------------------------------------------------------------------UAACAGAAGUUGUUGGAUUUAAGC------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ l=24 a=1 
--------------------------------------------------------------------------------------------------UAACAGAAGUUGUUGGAUUUAAGCU----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=25 a=10 (ma)
------------------------------------------------------------------------------------------------UAUAACAGAAGUUGUUGGAUUUAAGCUCCAUA------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ l=32 a=2 
------------------------------------------------------------------------------------AUCAGCUAAACC-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=12 a=1 
---------------------------------------------------------------------UUACCGUCCAAGA---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=13 a=1 
------------------------------------------------------------------ACCUUACCGUCuAAGAAAAU------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ l=20 a=1 
-------------------------------------------------------------UUGUUACCUUACCGUCCAAGA---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=21 a=1 
-------------------------------------------------------------UUGUUACCUUACCGUCCAAGAAA-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=23 a=1 
---------------------------------------------------------UAAUUUGUUACCUUACCGUCCAAGA---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=25 a=1 
------------------------------------------------ACCAACACCUAAUUUGUUACCUUA-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=24 a=1 
------------------------------------------------ACCAACACCUAAUUUGUUACCUUACC------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ l=26 a=1 
--------------------------------------UUCGAGCAAAACCAACACCUAAUUU----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=25 a=1 
-------------------------------------UUUCGAGCAAAACCAACACCUAAU------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=24 a=1 
--------------AACGAGAAgAGGACG--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=15 a=1 
-----------AUAAACGAGAAAAGGACGACU------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ l=21 a=1 
UAAUGGAUUAAAUAAACGAGAA---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=22 a=1 

mb-01011
ax-1000001
ku-01
ss-101001101100
fn-111
