species:   Rhsol
pid:       PID0513
parent:    Rhi-milR-47
paralog:   
locus:     KB317849.1:11259-11372
matures:   ['CAUGGAUCCGUAGGUGUUGGCGC', 'GCCAAGCUACUGUGGAUCCGUAGCC']
srr:       SRR1994877
genome:    /Users/jax/+Genomes/Fungal_genomes/Rhsol.AFRT00000000.1_scaffolds.fa
alignment: /media/data/njohnson/+SeqLibraries/FunHP_libraries/Lin2016-hq.SRR1994877.cram
call:      samtools view /media/data/njohnson/+SeqLibraries/FunHP_libraries/Lin2016-hq.SRR1994877.cram KB317849.1:11259-11372

30 out of bounds
71 alignments
51 proper strand
46 stranded perfect matches

                   *************************   ***************************                                        
GUAUUGGGGAGAGAGGAAGGGCAUGGAUCCGUAGGUGUUGGCGCUAAGCGCCAAGCUACUGUGGAUCCGUAGCCCCCUGUCAAUACAAACAAGCAGUGCAACUGGACACCCAUU
....((((..((.(((..((((((((((((((((...(((((((...)))))))....)))))))))))).))))))).))............((((...))))....))))..
---------------------CAUGGAUCCGUAGGUGUUGGCGC---------------------------------------------------------------------- l=23 a=12 c
-------------------------------------------------GCCAAGCUACUGUGGAUCCGUAGCC---------------------------------------- l=25 a=0 c*
---------------------CAUGGAUCCGUAGGUGUUGGCGC---------------------------------------------------------------------- l=23 a=12 ma
-------------------------------------------------GCCAAGCUACUGUGGAUCCGUAGCC---------------------------------------- l=25 a=0 ma*

GUAUUGGGGAGAGAGGAAGG---------------------------------------------------------------------------------------------- l=20 a=1 
GUAUUGGGGAGAGAGGAAGGG--------------------------------------------------------------------------------------------- l=21 a=1 
-UAUUGGGGAGAGAGGAAGG---------------------------------------------------------------------------------------------- l=19 a=1 
-UAUUGGGGAGAGAGGAAGGu--------------------------------------------------------------------------------------------- l=20 a=1 
-UAUUGGGGAGAGAGGAAGGG--------------------------------------------------------------------------------------------- l=20 a=1 
-UAUUGGGGAGAGAGGAAGGGCAU------------------------------------------------------------------------------------------ l=23 a=3 
-UAUUGGGGAGAGAGGAAGGGCAUG----------------------------------------------------------------------------------------- l=24 a=3 
---UUGGGGAGAGAGGAAGGGCAUG----------------------------------------------------------------------------------------- l=22 a=1 
---UUGGGGAGAGAGGAAGGGCAUGG---------------------------------------------------------------------------------------- l=23 a=2 
---UUGGGGAGAGAGGAAGGGCAUGGA--------------------------------------------------------------------------------------- l=24 a=2 
----UGGGGAGAGAGGAAGGGCAUGG---------------------------------------------------------------------------------------- l=22 a=1 
----UGGGGAGAGAGGAAGGGCAUGGA--------------------------------------------------------------------------------------- l=23 a=2 
---------AGAGAGGAAGGGCAUGGAUC------------------------------------------------------------------------------------- l=20 a=1 
---------AGAGAGGAAGGGCAUGGAUCa------------------------------------------------------------------------------------ l=21 a=1 
-------------AGGAAGGGCAUGGAUCCGUAGGU------------------------------------------------------------------------------ l=23 a=1 
-------------AGGAAGGGCAUGGAUCCGUAGGUGa---------------------------------------------------------------------------- l=25 a=1 
------------------GGGCAUGGAUCCGUAGGUGUaG-------------------------------------------------------------------------- l=22 a=1 
---------------------CAUGGAUCCGUAGGUGUUGGCG----------------------------------------------------------------------- l=22 a=1 
---------------------CAUGGAUCCGUAGGUGUUGGCGC---------------------------------------------------------------------- l=23 a=12 (c,ma)
---------------------CAUGGAUCCGUAGGgGUUGGCGC---------------------------------------------------------------------- l=23 a=1 
----------------------AUGGAUCCGUAGGUGUUGGC------------------------------------------------------------------------ l=20 a=1 
----------------------AUGGAUCCGUAGGUGUUGGCGC---------------------------------------------------------------------- l=22 a=3 
-----------------------UGGAUCCGUAGGUGUUGGC------------------------------------------------------------------------ l=19 a=2 
-----------------------UGGAUCCGUAGGUGUUGGCG----------------------------------------------------------------------- l=20 a=2 
-----------------------UGGAUCCGUAGGUGUUGGCGC---------------------------------------------------------------------- l=21 a=1 
-------------------------------------------CUAAGCGCCAAGCUACUGUGGAUC----------------------------------------------- l=24 a=1 
-----------------------------------------------------------------------------------UACAAACAAGCAGUGCAACUGG--------- l=22 a=1 
-----------------------------------------------------------------------------------UACAAACAAGCAGUGCAACUGGA-------- l=23 a=1 
-----------------------------------------------------------------------------------------CAAGCAGUGCAACUGGACACCC--- l=22 a=1 

mb-01011
ax-1011011
ku-01
ss-111110111100
fn-101
