species:   Pechr
pid:       PID0233
parent:    milR-19
paralog:   
locus:     CM002801.1:979955-980021
matures:   ['CGGACGAGAAUGCCGAGGCUCUGUU', '']
srr:       SRR1705825
genome:    /Users/jax/+Genomes/Fungal_genomes/Pechr.GCA_000710275.1_ASM71027v1_genomic.fa
alignment: /media/data/njohnson/+SeqLibraries/FunHP_libraries/Dahlmann2015-ew.SRR1705825.cram
call:      samtools view /media/data/njohnson/+SeqLibraries/FunHP_libraries/Dahlmann2015-ew.SRR1705825.cram CM002801.1:979955-980021

30 out of bounds
125 alignments
119 proper strand
96 stranded perfect matches

*********************                   ***************************
GGCCCCAGUUAUUCCUCUUUUAAACGAACCAGGUUCCCUAUUCGGACGAGAAUGCCGAGGCUCUGUU
((((.(.((.((((((((.......((((...)))).......))).).)))))).).)))).....
------------------------------------------CGGACGAGAAUGCCGAGGCUCUGUU l=25 a=34 c
------------------------------------------------------------------- l=0 a=0 c*
------------------------------------------CGGACGAGAAUGCCGAGGCUCUGUU l=25 a=34 ma
------------------------------------------------------------------- l=0 a=0 ma*

--------------------UAAACGAACCAGGUUCCCUA--------------------------- l=20 a=2 
--------------------UAAACGAACCAGGUUCCCUAU-------------------------- l=21 a=3 
---------------------AAACGAACCAGGUUCCCUAUUCGGACG------------------- l=27 a=2 
------------------------CGAACCAGGUUCCC----------------------------- l=14 a=1 
--------------------------AACCAGGUUCCCUAUUCGGAC-------------------- l=21 a=1 
---------------------------------UUCCCUAUUCGGACGAGAAUGCC----------- l=23 a=1 
----------------------------------------UUCGGACGAGAAU-------------- l=13 a=1 
----------------------------------------UUCGGACGAGAAUGCCGA--------- l=18 a=1 
----------------------------------------UUCGGACGAGAAUGCCGAGG------- l=20 a=1 
----------------------------------------UUCGGACGAGAAUGCCGAGGC------ l=21 a=2 
----------------------------------------UUCGGACGAGAAUGCCGAGGCU----- l=22 a=2 
----------------------------------------UUCGGACGAGAAUGCCGAGGCUCU--- l=24 a=2 
----------------------------------------UUCGGACGAGAAUGCCGAGGCUCUGU- l=26 a=2 
-----------------------------------------UCGGACGAGAAUGCCGAG-------- l=18 a=1 
-----------------------------------------UCGGACGAGAAUGCCGAGGCU----- l=21 a=3 
------------------------------------------CuGACGAGAAUGCCGAGG------- l=18 a=2 
------------------------------------------CGGACGAGAAUGCCGAGG------- l=18 a=3 
------------------------------------------CGGcCGAGAAUGCCGAGGC------ l=19 a=1 
------------------------------------------CGGACGAGAAUGCCGAGGC------ l=19 a=7 
------------------------------------------CuGACGAGAAUGCCGAGGC------ l=19 a=1 
------------------------------------------CuGACGAGAAUGCCGAGGCU----- l=20 a=3 
------------------------------------------CGGACGAGAAUGCCGAGGCU----- l=20 a=7 
------------------------------------------CGGACGAGAAUGCCGAGGCUa---- l=21 a=1 
------------------------------------------CGGACGAGAAUGCCGAGGCUCU--- l=22 a=12 
------------------------------------------CuGACGAGAAUGCCGAGGCUCU--- l=22 a=3 
------------------------------------------CGGcCGAGAAUGCCGAGGCUCUG-- l=23 a=1 
------------------------------------------CGGACGAGAAUGCCGAGGCUCUG-- l=23 a=1 
------------------------------------------CGGACGAGAAUGCCGAGGCUCUa-- l=23 a=1 
------------------------------------------CGGACGAGAAUGCCGAGGCUCUGU- l=24 a=4 
------------------------------------------CGGACGAGAAUGCCGAGGCUCUGUU l=25 a=34 (c,ma)
------------------------------------------CuGACGAGAAUGCCGAGGCUCUGUU l=25 a=8 
------------------------------------------CGGACGAGAAUGCCGAGGCUCUGUa l=25 a=2 
-----------------------------------------------GAGAAUGCCGAGGCUCUGUU l=20 a=2 
----------------------------------------------------UGCCGAGGCUCUG-- l=13 a=1 

mb-00010
ax-0001000
ku-01
ss-101011101000
fn-111
