species:   Scscl
pid:       PID1762
parent:    Ssc-milR-238
paralog:   
locus:     NW_001820825.1:949647-949737
matures:   ['UAUUGCAGAGAGAAUUGAUAGA', 'UAUCAUGGUUUGUCUCUGACU']
srr:       SRR12527899
genome:    /Users/jax/+Genomes/Fungal_genomes/Scscl.GCF_000146945.2_ASM14694v2.fa
alignment: /media/data/njohnson/+SeqLibraries/FunHP_libraries/Xia2020-rh.SRR12527899.cram
call:      samtools view /media/data/njohnson/+SeqLibraries/FunHP_libraries/Xia2020-rh.SRR12527899.cram NW_001820825.1:949647-949737

4 out of bounds
14 alignments
12 proper strand
11 stranded perfect matches

**********************                                             ************************
CUAUCAUGGUUUGUCUCUGACUCCAGUCGCUUAUUACCCUUCAAAACAGAGUGGAAGAUGUCGAGGAAGUAUUGCAGAGAGAAUUGAUAGA
((((((..((((.(((((((((((..(((..((((..(((((......))).))..)))).))))).)))....)))))))))))))))).
---------------------------------------------------------------------UAUUGCAGAGAGAAUUGAUAGA l=22 a=3 c
-UAUCAUGGUUUGUCUCUGACU--------------------------------------------------------------------- l=21 a=0 c*
---------------------------------------------------------------------UAUUGCAGAGAGAAUUGAUAGA l=22 a=3 ma
-UAUCAUGGUUUGUCUCUGACU--------------------------------------------------------------------- l=21 a=0 ma*

---UCAUGGUUUGUCUCUGACUCCA------------------------------------------------------------------ l=22 a=1 
------UGGUUUGUCUCUGACUCC------------------------------------------------------------------- l=18 a=1 
------UGGUUUGUCUCUGACUCCAGUCG-------------------------------------------------------------- l=23 a=1 
----------------------------------UACCCUUCAAAACAGAGUGGAA----------------------------------- l=22 a=1 
----------------------------------------UCAAAACAGAGUGGAAGAUGUCG---------------------------- l=23 a=1 
----------------------------------------UCAAAACAGgGUGGAAGAUGUCG---------------------------- l=23 a=1 
---------------------------------------------------UGGAAGAUGUCGAGGAAGUAU------------------- l=21 a=1 
----------------------------------------------------------UGUCGAGGAAGUAUUGCAGAGA----------- l=22 a=1 
------------------------------------------------------------UCGAGGAAGUAUUGCAGAGAGA--------- l=22 a=1 
---------------------------------------------------------------------UAUUGCAGAGAGAAUUGAUAGA l=22 a=3 (c,ma)

mb-01111
ax-1011011
ku-01
ss-111111111100
fn-111
