species:   Clros
pid:       PID1836
parent:    cro-mir-2
paralog:   
locus:     CADEHS020000002.2:2259334-2259412
matures:   ['UAGAAUUCGGGGUAGAAUG', '']
srr:       ERR5960111
genome:    /Users/jax/+Genomes/Fungal_genomes/Clros.GCA_902827195.2_C_rosea_IK726_genomic.fa
alignment: /media/data/njohnson/+SeqLibraries/FunHP_libraries/Piombo2021-ru.ERR5960111.cram
call:      samtools view /media/data/njohnson/+SeqLibraries/FunHP_libraries/Piombo2021-ru.ERR5960111.cram CADEHS020000002.2:2259334-2259412

5961 out of bounds
7726 alignments
7685 proper strand
7636 stranded perfect matches

****************                                          *********************
UACCCCGAAUUCUAUGGCGGCAACUAACCUGCCGCGAUCCUAACAUUCACAUUGCCGCCAUAGAAUUCGGGGUAGAAUG
(((((((((((((((((((((((............................))))))))))))))))))))))).....
------------------------------------------------------------UAGAAUUCGGGGUAGAAUG l=19 a=6535 c
------------------------------------------------------------------------------- l=0 a=0 c*
------------------------------------------------------------UAGAAUUCGGGGUAGAAUG l=19 a=6535 ma
------------------------------------------------------------------------------- l=0 a=0 ma*

---------------------------------------------------------------AAUUCGGGGUAGAAUG l=16 a=2 
--------------------------------------------------------------GAAUUCGGGGUAGAA-- l=15 a=2 
--------------------------------------------------------------GAAUUCGGGGUAGAAUG l=17 a=6 
-------------------------------------------------------------AGAAUUCGGGGUAGAAU- l=17 a=1 
-------------------------------------------------------------AGAAUUCGGGGUAGAAUG l=18 a=6 
-------------------------------------------------------------AGAAUUCGGGGUAGAAUu l=18 a=1 
------------------------------------------------------------UAGAAUUCGGGGU------ l=13 a=1 
------------------------------------------------------------UAGAAUUCGGGGUA----- l=14 a=28 
------------------------------------------------------------UAGAAUUCGGGGUAG---- l=15 a=4 
------------------------------------------------------------UAGAAUUCGGGGUAGA--- l=16 a=18 
------------------------------------------------------------UAGAAUUCGGGGUAGAA-- l=17 a=29 
------------------------------------------------------------UAGAAUUCGGGGUAGAAU- l=18 a=899 
------------------------------------------------------------UAGAAUUCGGGGUAGAAa- l=18 a=3 
------------------------------------------------------------UAGAAUUCGGGGUAGAAc- l=18 a=1 
------------------------------------------------------------UAGAAaUCGGGGUAGAAU- l=18 a=1 
------------------------------------------------------------UAGAAUUCGGGGUgGAAU- l=18 a=1 
------------------------------------------------------------UAGAAUaCGGGGUAGAAU- l=18 a=1 
------------------------------------------------------------UAGAAUUCGGGGUAGAuU- l=18 a=2 
------------------------------------------------------------UAGAAUUCGGGGUAGAAUG l=19 a=6535 (c,ma)
------------------------------------------------------------UAGAAUUCGGGGUgGAAUG l=19 a=3 
------------------------------------------------------------cAGAAUUCGGGGUAGAAUG l=19 a=1 
------------------------------------------------------------UAGAAcUCGGGGUAGAAUG l=19 a=4 
------------------------------------------------------------UAGAAgUCGGGGUAGAAUG l=19 a=2 
------------------------------------------------------------UAuAAUUCGGGGUAGAAUG l=19 a=1 
------------------------------------------------------------UAGAAUUaGGGGUAGAAUG l=19 a=1 
------------------------------------------------------------UAGAAUUCGGGGcAGAAUG l=19 a=2 
------------------------------------------------------------UAGAAUUCuGGGUAGAAUG l=19 a=1 
------------------------------------------------------------UAGAAUUCGGGGUAGAAcG l=19 a=1 
------------------------------------------------------------UAGAAUUCGGGGUAGAAgG l=19 a=3 
------------------------------------------------------------UAGAAUaCGGGGUAGAAUG l=19 a=1 
------------------------------------------------------------UAGAAUUCGGGGUAGAAaG l=19 a=1 
------------------------------------------------------------UAGAAUgCGGGGUAGAAUG l=19 a=1 
------------------------------------------------------------UAGAAUUuGGGGUAGAAUG l=19 a=1 
------------------------------------------------------------UgGAAUUCGGGGUAGAAUG l=19 a=2 
------------------------------------------------------------UAGAAUUCGGGGUAGAAUc l=19 a=3 
------------------------------------------------------------UAGAAUUCGGGGUAGgAUG l=19 a=4 
------------------------------------------------------------UAGAAUcCGGGGUAGAAUG l=19 a=2 
------------------------------------------------------------UAGgAUUCGGGGUAGAAUG l=19 a=1 
-----------------------------------------------------------AUAGAAUUCGGGGUAGAAU- l=19 a=2 
-----------------------------------------------------------uUAGAAUUCGGGGUAGAAU- l=19 a=1 
-----------------------------------------------------------cUAGAAUUCGGGGUAGAAUG l=20 a=1 
-----------------------------------------------------------AUAGAAUUCGGGGUAGAAUG l=20 a=1 
---------------------------------------------------------CCAUAGAAUUCGGGGUAGAAUc l=22 a=1 
----------------------------------------------------UGCCGCCAUAGAAUUCGGG-------- l=19 a=1 
-------------------------------------------------CAUUGCCGCCAUAGAAUUC----------- l=19 a=1 
----------------------------CUGCCGCGAUC---------------------------------------- l=11 a=1 
---------------------------CCUGCCGCGAUC---------------------------------------- l=12 a=8 
----------------GCGGCAACUAACCUGCCGCGAUCCUAACAUUCACAUUGC------------------------ l=39 a=2 
----------------GCGGCAACUAACCUGCCGCGAUCCUAACAUUCACAUUGCC----------------------- l=40 a=1 
----------------GCGGCAACUAACCUGCCGCGAUCCUAACAUUCACAUUGCCGCCA------------------- l=44 a=15 
----CCGAAUUCUAUG--------------------------------------------------------------- l=12 a=3 
----CCGAAUUCUAUGGCGGCAA-------------------------------------------------------- l=19 a=1 
UACCCCGAAUUCUAUGGCG------------------------------------------------------------ l=19 a=1 
UACCCCGAAUUCUAUGGCGGCAACU------------------------------------------------------ l=25 a=1 
UACCCCGAAUUCUAUGGCGGCAACUAACCUGCCGCGAU----------------------------------------- l=38 a=5 
UACCCCGAAUUCUAUGGCGGCAACUAACCUGCCGCGAUC---------------------------------------- l=39 a=19 
UACCCCGAAUUCUAUGGCGGCAACUAACCUGCCGCGAUCC--------------------------------------- l=40 a=13 
UACCCCGAAUUCUAUGGCGGCAACUAACCUGCCGCGAUCCU-------------------------------------- l=41 a=4 
UACCCCGAAUUCUAUGGCGGCAACUAACCUGCCGCGAUCCUAA------------------------------------ l=43 a=3 
UACCCCGAAUUCUAUGGCGGCAACUAACCUGCCGCGAUCCUAAa----------------------------------- l=44 a=1 
UACCCCGAAUUCUAUGGCGGCAACUAACCUGCCGCGAUCCUAACA---------------------------------- l=45 a=2 
UACCCCGAAUUCUAUGGCGGCAACUAACCUGCCGCGAUCCUAACAUUCACA---------------------------- l=51 a=21 

mb-00110
ax-0011100
ku-11
ss-101011111010
fn-111
