species:   Comil
pid:       PID1137
parent:    milR5
paralog:   
locus:     NW_006271969.1:3900345-3900597
matures:   ['CUAGCCAGCCAGCGAGUAAGUAA', 'GCUGGCUUCCUCGCUGGCUGGCUGGCU']
srr:       SRR8054055
genome:    /Users/jax/+Genomes/Fungal_genomes/Comil.GCF_000225605.1_CmilitarisCM01_v01_genomic.fa
alignment: /media/data/njohnson/+SeqLibraries/FunHP_libraries/Shao2019-xf.SRR8054055.cram
call:      samtools view /media/data/njohnson/+SeqLibraries/FunHP_libraries/Shao2019-xf.SRR8054055.cram NW_006271969.1:3900345-3900597

4 out of bounds
76 alignments
75 proper strand
49 stranded perfect matches

                **********************                                                                                                                                                                                 **********************                
GCUAGUAAGGAAGCUAGCAAGGAAGCUAGCCAGCCAGCGAGUAAGUAAGCUAGCAAGGAAGCUAGCCAGCAAGGAACCAAUAAGUAAGCUAGCUAGCGAGGAAGUAGUAGGGCACUUAUUAUUAAAGAAGCUUACUAGCUACCUACCUAGGUAGCUCUUGCUGGCUGGCUGGCUUCCUUGCUGGCUGGCUUCCUUGCUGGCUGGCUGGCUUCCUCGCUGGCUGGCUGGCUUCCUCGUUAGCUUCCUUGCUGGC
((((((((((((((((((.((((((((((((((((((((((.((((.((((((((((((((((((((((((((((((((........((((((((((((((...(((((((...(((.......)))...)))))))(((((((....)))))))))))))))))))))))).))))))))))))))))))))))))))))).....)))).)))))))))))))))))))))).))))))))))))))))))
-------------------------CUAGCCAGCCAGCGAGUAAGUAA------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=23 a=0 c
-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GCUGGCUUCCUCGCUGGCUGGCUGGCU----------------------- l=27 a=0 c*
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UGGCUGGCUGGCUUCCUCGU---------------- l=20 a=5 ma
------------------AAGGAAGCUAGCCAGCCAGC----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- l=20 a=0 ma*

------------------------------------------------------------------------------------------------------------------------------------------------------------CUUGCUGGCUGGCUGGCUUCCU--------------------------------------------------------------------------- l=22 a=3 
-----------------------------------------------------------------------------------------------------------------------------------------------------------------UGGCUGGCUGGCUUCCUUaCU----------------------------------------------------------------------- l=21 a=4 
-----------------------------------------------------------------------------------------------------------------------------------------------------------------UGGCUGGCUGGCUUCCUUaCUG---------------------------------------------------------------------- l=22 a=6 
-----------------------------------------------------------------------------------------------------------------------------------------------------------------UGGCUGGCUGGCUUCCUUGCUGa--------------------------------------------------------------------- l=23 a=1 
-----------------------------------------------------------------------------------------------------------------------------------------------------------------UGGCUGGCUGGCUUCCUUaCUGG--------------------------------------------------------------------- l=23 a=1 
---------------------------------------------------------------------------------------------------------------------------------------------------------------------UGGCUGGCUUCCUUGCUGGa-------------------------------------------------------------------- l=20 a=1 
---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UUGCUGGCUGGCUUCCUUGCUG------------------------------------------------------ l=22 a=2 
----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UGCUGGCUGGCUUCCUUGCUG------------------------------------------------------ l=21 a=1 
--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------gUUCCUUGCUGGCUGGCUGGCU------------------------------------------- l=22 a=1 
------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CUUGCUGGCUGGCUGGCUUCCUC-------------------------------------- l=23 a=1 
-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UGGCUGGCUGGCUUCCUCGC------------------------------------ l=20 a=4 
-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UGGCUGGCUGGCUUCCUCGCU----------------------------------- l=21 a=2 
-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UGGCUGGCUGGCUUCCUCGCUG---------------------------------- l=22 a=2 
-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------cGGCUGGCUGGCUUCCUCGCUG---------------------------------- l=22 a=1 
-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UGGCUGGCUGGCUUCCUCGCUGG--------------------------------- l=23 a=1 
------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GGCUGGCUGGCUUCCUCGC------------------------------------ l=19 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UGGCUUCCUCGCUGGCUGG----------------------------- l=19 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UGGCUUCCUCGCUGGCUGGC---------------------------- l=20 a=3 
---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GCUUCCUCGCUGGCUGGCUGGC------------------------ l=22 a=1 
----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CUUCCUCGCUGGCUGGCUGGCUa---------------------- l=23 a=2 
----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CUUCCUCGCUGGCUGGCUGGCUU---------------------- l=23 a=4 
----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CUUCCUCGCUGGCUGGCUGGCUaC--------------------- l=24 a=2 
----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CUUCCUCGCUGGCUGGCUGGCUcC--------------------- l=24 a=1 
----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CUUCCUCGCUGGCUGGCUGGCUUC--------------------- l=24 a=1 
-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UUCCUCGCUGGCUGGCUGG------------------------- l=19 a=4 
-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UUCCUCGCUGGCUGGCUGGC------------------------ l=20 a=1 
-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UUCCUCGCUGGCUGGCUGGCUUCC-------------------- l=24 a=1 
-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UUCCUCGCUGGCUGGCUGGCUUCCU------------------- l=25 a=1 
-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UUCCUCGCUGGCUGGCUGGCUUCCUCa----------------- l=27 a=1 
------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UCCUCGCUGGCUGGgUGGCUU---------------------- l=21 a=1 
------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UCCUCGCUGGCUGGCUGGCUUCa-------------------- l=23 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CCUCGCUGGCUGGCUGGCUUC--------------------- l=21 a=4 
---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UCGCUGGCUGGCUGGCUUCCUC------------------ l=22 a=1 
----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CGCUGGCUGGCUGGCUUCCUC------------------ l=21 a=2 
----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CGCUGGCUGGCUGGCUUCCUCGa---------------- l=23 a=1 
----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CGCUGGCUGGuUGGCUUCCUCGU---------------- l=23 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UGGCUGGCUGGCUUCCUCGU---------------- l=20 a=5 (ma)
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UGGCUGGCUGGCUUCCUCGUc--------------- l=21 a=1 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UGGCUGGCUGGCUUCCUCGUUA-------------- l=22 a=2 
-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UGGCUGGCUUCCUCGUUA-------------- l=18 a=1 

mb-01011
ax-1011011
ku-01
ss-111111111100
fn-011
