species:   Clros
pid:       PID1837
parent:    cro-mir-3
paralog:   
locus:     CADEHS020000005.2:590453-590538
matures:   ['UUAGCCUCGAGACUUUGCA', 'CAAAGUCUCGAGGCUGAG']
srr:       ERR5960091
genome:    /Users/jax/+Genomes/Fungal_genomes/Clros.GCA_902827195.2_C_rosea_IK726_genomic.fa
alignment: /media/data/njohnson/+SeqLibraries/FunHP_libraries/Piombo2021-ru.ERR5960091.cram
call:      samtools view /media/data/njohnson/+SeqLibraries/FunHP_libraries/Piombo2021-ru.ERR5960091.cram CADEHS020000005.2:590453-590538

95 out of bounds
4176 alignments
3623 proper strand
2843 stranded perfect matches

*******************                                              ******************** 
UUAGCCUCGAGACUUUGCAGGAUAUAUUCUUUUUCUUUUUCGCCGUAAAGAAAACAAAGCUAUCCGGCAAAGUCUCGAGGCUGAGC
((((((((((((((((((.(((((..((..((((((((........))))))))..))..))))).))))))))))))))))))..
UUAGCCUCGAGACUUUGCA------------------------------------------------------------------- l=19 a=1529 c
-------------------------------------------------------------------CAAAGUCUCGAGGCUGAG- l=18 a=0 c*
UUAGCCUCGAGACUUUGCA------------------------------------------------------------------- l=19 a=1529 ma
-------------------------------------------------------------------CAAAGUCUCGAGGCUGAG- l=18 a=0 ma*

UUAGCCUCGAGACUUUG--------------------------------------------------------------------- l=17 a=2 
UUAGCCUCGAGACUUUGC-------------------------------------------------------------------- l=18 a=213 
UUAGCCUCGAGAuUUUGC-------------------------------------------------------------------- l=18 a=1 
UUAGCCUCGAGgCUUUGC-------------------------------------------------------------------- l=18 a=1 
UUAGCCUCGAGACUUUGCA------------------------------------------------------------------- l=19 a=1529 (c,ma)
UUAGCCUCGAGACUUUGCc------------------------------------------------------------------- l=19 a=60 
UUAGCCUCGAGACcUUGCA------------------------------------------------------------------- l=19 a=1 
UUAGCCUCGAGAaUUUGCA------------------------------------------------------------------- l=19 a=1 
UUAGCCUCGAGACUUUGaA------------------------------------------------------------------- l=19 a=2 
UUAGCCUCGAGACUaUGCA------------------------------------------------------------------- l=19 a=1 
UUAGCCcCGAGACUUUGCA------------------------------------------------------------------- l=19 a=1 
UUAGCCUCGAGACUUUGCu------------------------------------------------------------------- l=19 a=1 
UUAGCCUCGAGACUgUGCA------------------------------------------------------------------- l=19 a=1 
UUAGCCUCGgGACUUUGCA------------------------------------------------------------------- l=19 a=1 
UUAGCCUCGAGACUUUGCAG------------------------------------------------------------------ l=20 a=961 
UUAGCCUCGAGACUUUGCAa------------------------------------------------------------------ l=20 a=116 
UUAGCCUCGAGACUUUGCAc------------------------------------------------------------------ l=20 a=20 
UUgGCCUCGAGACUUUGCAG------------------------------------------------------------------ l=20 a=2 
UUAGCCUCGAGACUUUGuAG------------------------------------------------------------------ l=20 a=2 
UUAGCCUCGAGACUUUGCcG------------------------------------------------------------------ l=20 a=2 
UUAGCCUCGAGACUUUGCAu------------------------------------------------------------------ l=20 a=1 
UUAGCCUCGAGACUUUGCAGa----------------------------------------------------------------- l=21 a=396 
UUAGCCUCGAGACUUUGCAGG----------------------------------------------------------------- l=21 a=24 
UUAGCCUCGAGACUUUGCAGc----------------------------------------------------------------- l=21 a=57 
UUAGCCUCGAGACUUUGCAGu----------------------------------------------------------------- l=21 a=5 
UUAGCCUCGAGACUUUGCAGaA---------------------------------------------------------------- l=22 a=85 
UUAGCCUCGAGACUUUGCAGGA---------------------------------------------------------------- l=22 a=5 
UUAGCCUCGAGACUUUGCAGGAa--------------------------------------------------------------- l=23 a=4 
UUAGCCUCGAGACUUUGCAGaAU--------------------------------------------------------------- l=23 a=1 
UUAGCCUCGAGACUUUGCAGGAc--------------------------------------------------------------- l=23 a=2 
-UAGCCUCGAGACUUUGC-------------------------------------------------------------------- l=17 a=3 
-UAGCCUCGAGACUUUGCA------------------------------------------------------------------- l=18 a=4 
-UAGCCUCGAGACUUUGCAG------------------------------------------------------------------ l=19 a=6 
-UAGCCUCGAGACUUUGCAGa----------------------------------------------------------------- l=20 a=9 
-UAGCCUCGAGACUUUGCAGc----------------------------------------------------------------- l=20 a=1 
--AGCCUCGAGACUUUGCAG------------------------------------------------------------------ l=18 a=2 
----CCUCGAGACUUUGCAG------------------------------------------------------------------ l=16 a=1 
------UCGAGACUUUGCAG------------------------------------------------------------------ l=14 a=1 
------UCGAGACUUUGCAGGAUAUAUUC--------------------------------------------------------- l=23 a=1 
------UCGAGACUUUGCAGGAUAUAUUCU-------------------------------------------------------- l=24 a=1 
------UCGAGACUUUGCAGGAUAUAUUCUUUUUC--------------------------------------------------- l=29 a=1 
------UCGAGACUUUGCAGGAUAUAUUCUUUUUCUUUUUCGCCGUAAAGAAAA-------------------------------- l=48 a=1 
--------------------------------------------------------------UCCGGCAAAGUCUCGAGG------ l=18 a=2 
--------------------------------------------------------------UCCGGCAAAGUCUCGAGGC----- l=19 a=9 
--------------------------------------------------------------UCCGGCAAAGUCUCGAGGCU---- l=20 a=5 
--------------------------------------------------------------UCCGGCAAAGUCUCGAGGCUGAGC l=24 a=1 
----------------------------------------------------------------CGGCAAAGUCUCGAGGCU---- l=18 a=1 
----------------------------------------------------------------CGGCAAAGUCUCGAGGCUGA-- l=20 a=2 
----------------------------------------------------------------CGGCAAAGUCUCGAGGCUGAa- l=21 a=1 
----------------------------------------------------------------CGGCAAAGUCUCGAGGCUGAGC l=22 a=63 
----------------------------------------------------------------CGGCAAAGUCUCGAGGCUGAcC l=22 a=1 
----------------------------------------------------------------CGGCAAAGUCUCGAGGCUGAaC l=22 a=3 
-----------------------------------------------------------------GGCAAAGUCUCGAGGCUGAGC l=21 a=4 
-----------------------------------------------------------------GGCAAAGUCUCGAGGCUGAaC l=21 a=1 
---------------------------------------------------------------------AAGUCUCGAGGC----- l=12 a=1 

mb-01111
ax-1011001
ku-11
ss-101011111110
fn-111
