species:   Clros
pid:       PID1837
parent:    cro-mir-3
paralog:   
locus:     CADEHS020000005.2:590453-590538
matures:   ['UUAGCCUCGAGACUUUGCA', 'CAAAGUCUCGAGGCUGAG']
srr:       ERR5950923
genome:    /Users/jax/+Genomes/Fungal_genomes/Clros.GCA_902827195.2_C_rosea_IK726_genomic.fa
alignment: /media/data/njohnson/+SeqLibraries/FunHP_libraries/Piombo2021-ru.ERR5950923.cram
call:      samtools view /media/data/njohnson/+SeqLibraries/FunHP_libraries/Piombo2021-ru.ERR5950923.cram CADEHS020000005.2:590453-590538

60 out of bounds
1779 alignments
1560 proper strand
1166 stranded perfect matches

*******************                                              ******************** 
UUAGCCUCGAGACUUUGCAGGAUAUAUUCUUUUUCUUUUUCGCCGUAAAGAAAACAAAGCUAUCCGGCAAAGUCUCGAGGCUGAGC
((((((((((((((((((.(((((..((..((((((((........))))))))..))..))))).))))))))))))))))))..
UUAGCCUCGAGACUUUGCA------------------------------------------------------------------- l=19 a=528 c
-------------------------------------------------------------------CAAAGUCUCGAGGCUGAG- l=18 a=0 c*
UUAGCCUCGAGACUUUGCA------------------------------------------------------------------- l=19 a=528 ma
-------------------------------------------------------------------CAAAGUCUCGAGGCUGAG- l=18 a=0 ma*

UUAGCCUCGAGACUU----------------------------------------------------------------------- l=15 a=2 
UUAGCCUCGAGACUUUG--------------------------------------------------------------------- l=17 a=1 
UUAGCCUCGAGACUUUGC-------------------------------------------------------------------- l=18 a=55 
UUAGCCUCGAGACUUUGa-------------------------------------------------------------------- l=18 a=4 
UUAGCCUCGAGACUUUGCA------------------------------------------------------------------- l=19 a=528 (c,ma)
UUAGCCUCGAGACUUUGCc------------------------------------------------------------------- l=19 a=20 
UUAGCCUCGAGACUaUGCA------------------------------------------------------------------- l=19 a=1 
UUAGCCUCGAGACUUUGCAG------------------------------------------------------------------ l=20 a=463 
UUAGCCUCGAGACUUUGCAa------------------------------------------------------------------ l=20 a=33 
gUAGCCUCGAGACUUUGCAG------------------------------------------------------------------ l=20 a=1 
UUAGCCUCGAGACUUUGCAc------------------------------------------------------------------ l=20 a=2 
UUAGCCcCGAGACUUUGCAG------------------------------------------------------------------ l=20 a=1 
UUAuCCUCGAGACUUUGCAG------------------------------------------------------------------ l=20 a=1 
UUAGCCUCGAGACUUUGCAGG----------------------------------------------------------------- l=21 a=20 
UUAGCCUCGAGACUUUGCAGa----------------------------------------------------------------- l=21 a=175 
UUAGCCUCGAGACUUUGCAGc----------------------------------------------------------------- l=21 a=27 
UUAGCCUCGAGACUUUGCAGu----------------------------------------------------------------- l=21 a=3 
UUAGCCUCGAGACUUUGCAGaA---------------------------------------------------------------- l=22 a=91 
UUAGCCUCGAGACUUUGCAGGA---------------------------------------------------------------- l=22 a=4 
UUAGCCUCGAGACUUUGCAGGAa--------------------------------------------------------------- l=23 a=12 
UUAGCCUCGAGACUUUGCAGGAc--------------------------------------------------------------- l=23 a=8 
-UAGCCUCGAGACUUUGCA------------------------------------------------------------------- l=18 a=3 
-UAGCCUCGAGACUUUGCc------------------------------------------------------------------- l=18 a=1 
-UAGCCUCGAGACUUUGCAG------------------------------------------------------------------ l=19 a=4 
-UAGCCUCGAGACUUUGCAa------------------------------------------------------------------ l=19 a=1 
-UAGCCUCGAGACUUUGCAGa----------------------------------------------------------------- l=20 a=2 
--AGCCUCGAGACUUUGCAG------------------------------------------------------------------ l=18 a=1 
----CCUCGAGACUUUGCAGa----------------------------------------------------------------- l=17 a=1 
------UCGAGACUUUGCAGGAUAUAUUCUUUUU---------------------------------------------------- l=28 a=1 
-------------------------------------------CGUAAAGAAAACgAAGCUAUCCGGCAAAGU------------- l=30 a=1 
--------------------------------------------------------------UCCGGCAAAGUCUCGAGG------ l=18 a=2 
--------------------------------------------------------------UCCGGCAAAGUCUCGAGGC----- l=19 a=4 
--------------------------------------------------------------UCCGGCAAAGUCUCGAGGCU---- l=20 a=9 
--------------------------------------------------------------UCCGGCAAAGUCUCGAGGCUGAGC l=24 a=1 
----------------------------------------------------------------CGGCAAAGUCUCGAGGCU---- l=18 a=2 
----------------------------------------------------------------CGGCAAAGUCUCGAGGCUG--- l=19 a=1 
----------------------------------------------------------------CGGCAAAGUCUCGAGGCUGA-- l=20 a=1 
----------------------------------------------------------------CGGCAAAGUCUCGAGGCUGAc- l=21 a=2 
----------------------------------------------------------------CGGCAAAGUCUCGAGGCUGAa- l=21 a=1 
----------------------------------------------------------------CGGCAAAGUCUCGAGGCUGAGC l=22 a=61 
----------------------------------------------------------------CGGCAAAGUCUCGAGGCUGAaC l=22 a=4 
-----------------------------------------------------------------GGCAAAGUCUCGAGGCUGAGC l=21 a=3 
-----------------------------------------------------------------GGCAAAGUCUCGAGGCUGAcC l=21 a=1 
-----------------------------------------------------------------GGCAAAGUCUCGAGGCUGAaC l=21 a=1 

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