species:   Rhsol
pid:       PID0474
parent:    Rhi-milR-38
paralog:   
locus:     KB317706.1:45512-45581
matures:   ['AUUGAGGCCAUCUGAACAAGG', 'UUGCAUGCAGUGGCCUGUUUGG']
srr:       SRR1994876
genome:    /Users/jax/+Genomes/Fungal_genomes/Rhsol.AFRT00000000.1_scaffolds.fa
alignment: /media/data/njohnson/+SeqLibraries/FunHP_libraries/Lin2016-hq.SRR1994876.cram
call:      samtools view /media/data/njohnson/+SeqLibraries/FunHP_libraries/Lin2016-hq.SRR1994876.cram KB317706.1:45512-45581

30 out of bounds
27 alignments
26 proper strand
25 stranded perfect matches

        ************************     *************************        
AUAUUUGGCCAUUGAGGCCAUCUGAACAAGGGCAGCUAACUUGCAUGCAGUGGCCUGUUUGGCAUCAGGG
.......((((...((((((.(((..((((.........))))....)))))))))...)))).......
----------AUUGAGGCCAUCUGAACAAGG--------------------------------------- l=21 a=0 c
----------------------------------------UUGCAUGCAGUGGCCUGUUUGG-------- l=22 a=1 c*
----------AUUGAGGCCAUCUGAACAAGGG-------------------------------------- l=22 a=10 ma
---------------------------------------CUUGCAUGCAGUGGCCUGUUUGG-------- l=23 a=0 ma*

--------CCAUUGAGGCCAUCUGAACAAG---------------------------------------- l=22 a=1 
---------CAUUGAGGCCAUCUGAACAAG---------------------------------------- l=21 a=1 
---------CAUUGAGGCCAUCUGAACAAGG--------------------------------------- l=22 a=2 
---------CAUUGAGGCCAUCUGAACAAGGG-------------------------------------- l=23 a=4 
----------AUUGAGGCCAUCUGAACAAGGG-------------------------------------- l=22 a=10 (ma)
----------AUUGAGGCCAUCUGAACAAGGGg------------------------------------- l=23 a=1 
----------AUUGAGGCCAUCUGAACAAGGGC------------------------------------- l=23 a=1 
-----------UUGAGGCCAUCUGAACAAGGG-------------------------------------- l=21 a=1 
------------UGAGGCCAUCUGAACAAGGG-------------------------------------- l=20 a=3 
-------------------------------------AACUUGCAUGCAGUGGCCUGUUUG--------- l=24 a=1 
----------------------------------------UUGCAUGCAGUGGCCUGUUUGG-------- l=22 a=1 (c*)

mb-01011
ax-1001011
ku-01
ss-111111101110
fn-111
