species:   Clros
pid:       PID2251
parent:    cro-mir-46
paralog:   
locus:     CADEHS020000002.2:2828841-2828933
matures:   ['AUUCCCCGUAUCGGAGA', 'AGGCUGGCGAGGCGAAUC']
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 CADEHS020000002.2:2828841-2828933

983 out of bounds
178 alignments
178 proper strand
151 stranded perfect matches

 **************                                                             **************   
AUUCCCCGUAUCGGAGAUUGUGUAUGAAACAUUCUUUUUGGUCACUUUUUGAAGAUGAGCGUGCAUGCAUAAUGAGGCUGGCGAGGCGAAUCC
(((((((((..(((..((((((((((..((.(((.((((.(........).)))).))).)).))))))))))....)))))).)).))))..
AUUCCCCGUAUCGGAGA---------------------------------------------------------------------------- l=17 a=28 c
--------------------------------------------------------------------------AGGCUGGCGAGGCGAAUC- l=18 a=0 c*
---CCCCGUAUCGGA------------------------------------------------------------------------------ l=12 a=42 ma
------------------------------------------------------------------------------UGGCGAGGCGAA--- l=12 a=0 ma*

AUUCCCCGUAUCGG------------------------------------------------------------------------------- l=14 a=1 
AUUCCCCGUAUCGGA------------------------------------------------------------------------------ l=15 a=40 
AUUCCCCGUAcCGGA------------------------------------------------------------------------------ l=15 a=1 
AUUCCCCGcAUCGGAG----------------------------------------------------------------------------- l=16 a=1 
AUUCCCCGUAUCGGAG----------------------------------------------------------------------------- l=16 a=6 
AUUCCCCGUAUCGGAu----------------------------------------------------------------------------- l=16 a=1 
AUUCCCCGUAUCGGAGc---------------------------------------------------------------------------- l=17 a=12 
AUUCCCCGUAUCGGAGA---------------------------------------------------------------------------- l=17 a=28 (c)
AUUCCCCGUAUCGGAGAUUGUGUAUGAAACAUUCUUUUU------------------------------------------------------ l=39 a=1 
-UUCCCCGUAUCGGA------------------------------------------------------------------------------ l=14 a=4 
-UUCCCCGUAUCGGAG----------------------------------------------------------------------------- l=15 a=1 
-UUCCCCGUAUCGGAGc---------------------------------------------------------------------------- l=16 a=6 
--UCCCCGUAUCGGA------------------------------------------------------------------------------ l=13 a=4 
--UCCCCGUAUCGGAG----------------------------------------------------------------------------- l=14 a=6 
--UCCCCGUAUCGGAGc---------------------------------------------------------------------------- l=15 a=4 
--UCCCCGUAUCGGAGAUUGUGUAUGAAACAUUCUUU-------------------------------------------------------- l=35 a=1 
---CCCCGUAUCGG------------------------------------------------------------------------------- l=11 a=1 
---CCCCGUAUCGGA------------------------------------------------------------------------------ l=12 a=42 (ma)
---CCCCGUAUCGGAG----------------------------------------------------------------------------- l=13 a=6 
---CCCCGUAUCGGAGc---------------------------------------------------------------------------- l=14 a=2 
----CCCGUAUCGGA------------------------------------------------------------------------------ l=11 a=3 
----CCCGUAUCGGAG----------------------------------------------------------------------------- l=12 a=2 
-----CCGUAUCGGAG----------------------------------------------------------------------------- l=11 a=1 
--------UAUCGGAGAUUGUGUAUGAA----------------------------------------------------------------- l=20 a=1 
----------------AUUGUGUAUGAAACAUUCUU--------------------------------------------------------- l=20 a=1 
----------------AUUGUGUAUGAAACAUUCUUUUU------------------------------------------------------ l=23 a=1 
--------------------UGUAUGAAACAUUCUUUU------------------------------------------------------- l=18 a=1 

mb-01011
ax-1011001
ku-01
ss-101011111100
fn-111
