>input_sequence_72295
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--------------------------------------------AACCAAACCACAGAAGCCATGGCGTCATCGTCGGCG
GC---TAAGCCTACGCCCACCACCACCCTCCGCGTGGCCGCCTTCAA-CGGCTCCCTCCGCAAGGGCTCGTGGCACGG--
---------------CGGCCTCATCCGCGCGGCCGAGGAGCTGTGCCAGGAGTCCAT-----------------------
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-----------------------------------------------------------ACCGGGGCTGCGAATCGACCA
CGTCGACATCTCCGGCCTAC----------------CCATGGCCACCCCGGACCTGGAG---------------------
----------------------------------------------------ACGGACGACGGCGACGGCTTCCCGCCGG
ACGTCGAGGCGTTCCGGGACAGGGTCAGCGCCGCCGACTGCTTCCTCTTCGCCTCGCCCGAGTACAACTACTCCGTCACC
GCCACGCTGAAGAACGCGCTGGACTGGGCGTCCAGGGGCACGCACAAGTGCTGGGCGGACAAGGCGGCGGCCATCGTCTC
CGCGGGGGGCAGCTGCGGCGGTGGCAGGGCGGCGTTCCACCTCCGCCAGATCGGGGTGTTCCTTGACATCCACTTCATCA
ACAAGCCGGAGCTCCAGGTCAGGGCGTACGAGGACCCGCCCAAGTTCGACGCCGACGGGAACCTCGTCGACGCCGAGACC
AGGGAGCGGCTCAGGCAGGTGCTCCTCTCGCTGCAGGCCTTCGCGCTCCGGCTCCAACACTA---------------GGA
CTGGCTGAAGAAGAAACTTGGCACCGCGCGTTAAA-TAAA----------------------------------------
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>chr3B_1_TraesCS3B01G551400
CGGCGACATTTGTTTGCAAGCGTTGATCTGTATTGCTGGAACCAGGGA-TTTTTTTTGCTGGAAGCGTGGGGCACAAATG
CTACAAACAACACCACCATGCATCCCGCCGGTGAAATTTTTGCTTCAACCGACGATCTCATTTGCTGGAACTAGAGATTA
TTTTTGCTCGAACCGGCAAACGTTTTTGTGTCGCGGCCGTGGCGTGCTGCATCCGGCGGCGCCAATTCTTCGGCCGGCTG
CGAGGAATTTGCTACCACCACGTTGTGAGGTGCTGGAACCACTCTTCTTTTTTGCTGGACTGACTAGTATTTTTGCTACC
ATCGAGTACTGGTGTTTTTGTTTCTGTGATCTTTTTGCTGAAACCGATGTTATTTTTTGCTGGAACCGGCTAATTTCTTT
GATTCAATGAGGTTTCTGAGTTTCTTTGTTGGAAAACGGTGGTGAATTGCGACGACGGCGAACCGGCGGCATTGACGCTG
GAGTGCTACAACCATGGCAACCACGAGCTGGAAACGACCAGAGCTGCAGTCGTCAACAACAGGAGCTGGGACCCACTCGC
GGTCGTGCTATAACAATCCCTGCAGCCGCCGGCGAGGACGGCAAGCTGCAGTCCGGTGAGGATGCAGCGGTGCTGCAACT
GTGTGCGACGGAGCCGTGTGCCGCTGCATCGTTGAGGCGGACGACAAGCATAGAGATGGAGGCAAACAACAGCGGAGGAA
GAGACGGGCTGTGTTGACTTGGTGAGGATTAGATTTGATTTTAGTAGGGGCAAATCGAGTGGCTGCGAGGTGACCGGCCC
AAATTTGGGACGGTGCACCGACCCCTATTACTGCCCAAAGGTTTTCTATGAAATGACGTCGGGGCTCTCACTCATTGCTC
TGTTTTATAATAAAGTATAATAAACACTGTCGGTGGGTGAATCAGCG-GCGCAGCCCAACGTTGACGATGAAACCCAGTC
GTGCGCCTATT--TATACCCAGAGCATATGACACGAGAGGATTCAACCAAACCACAGAAGCCATGGCGTCATCGTCGGCG
GC---TAAGCCTACGCCCACCACCACCCTCCGCGTGGCCGCCTTCAA-CGGCTCCCTCCGCAAGGGCTCGTGGCACGG--
---------------CGGCCTCATCCGCGCGGCCGAGGAGCTGTGCCAGGAGTCCAT-----------------------
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-----------------------------------------------------------ACCGGGGCTGCGAATCGACCA
CGTCGACATCTCCGGCCTAC----------------CCATGGCCACCCCGGACCTGGAG---------------------
----------------------------------------------------ACGGACGACGGCGACGGCTTCCCGCCGG
ACGTCGAGGCGTTCCGGGACAGGGTCAGCGCCGCCGACTGCTTCCTCTTCGCCTCGCCCGAGTACAACTACTCCGTCACC
GCCACGCTGAAGAACGCGCTGGACTGGGCGTCCAGGGGCACGCACAAGTGCTGGGCGGACAAGGCGGCGGCCATCGTCTC
CGCGGGGGGCAGCTGCGGCGGTGGCAGGGCGGCGTTCCACCTCCGCCAGATCGGGGTGTTCCTTGACATCCACTTCATCA
ACAAGCCGGAGCTCCAGGTCAGGGCGTACGAGGACCCGCCCAAGTTCGACGCCGACGGGAACCTCGTCGACGCCGAGACC
AGGGAGCGGCTCAGGCAGGTGCTCCTCTCGCTGCAGGCCTTCGCGCTCCGGCTCCAACACTA---------------GGA
CTGGCTGAAGAAGAAACTTGGCACCGCGCGTTAAA-TAAACGTTAATCTGCATTTCCCTTTGGGTGTTGGATATGTTCAT
ATGTATGTACG--------------------TACTTTTAACTTTTGTTGGGCAAAGGACATTTTGATCCGTATTCCTCAC
CATAGTCTGTATGTGGTTCTGTGAGAAAGAGTAAAGCCAATGCTGCTAAACAGCGTGCTTGTAAGTAATCACGCGAGTAC
CCCTTTTATAAACGCTTTTGTTAAGTTTTACTCGACTGGTTTATGTCATAGTCAACAGTCAACACTGAGATCTGTCATGG
AGAGCAGTGTAACATTTACAATTTTTAAGGCCTAATAATAAACAATGGTAGTACATCACTGAATTTTGAAGTCTCAGTCA
ACAATGAGATATATCATAGAGAGCCGTGCCAAATTTGTATTTTATGGCCCTGAGAATAGACAATACTTACTAAGAATGAG
ACCAACCCAAGGGCTAACCCTCGTTGACATTTATTTATAGGAGAAACTCCGCAAGCACCACGCATCAAAGCCGGGACTTG
AACTCGGGTGGGCTGGCAGCAACCTTAGCTGCCCAGCCAACGGGTCGACGCCCCGTCCTCATAGACAGTACTTACTACAA
CAACTTTAATAGTATTAGATGAACAAAGTAGTACTACAACACAGTTTCCCCCTATTGAACTGTCCTTTTGATCTTAGGCC
TTCCCCAATGCTTCATGTTTGTATAAATGCTAAGACTGTCATGTAGGCAAAAAATCTGATGTGGCAAGGTAATAAAAAGG
AGAGAAGTGAGTTTGATGACCCCAAGAAAAACCAATGTCAAACACGTGAACCTAGGCAAAAGCAATTAAATGAAAGAAAC
CCACCAATGCATGAAATAGTTTAGTTGCTAAAGCATTAAATGAGGAGAGTTTAGCACCAACAAGTGAAGCACCCAAGCAT
TGTGGACATTAGTTTCTAAACTTTTTAATATGCTTAGCATCTTATCTAACCACCTATGCATTGGAAGTGGCCTTATATTT
TATAATCTGCCGTGGAGAAG
>chr2D_1
CGGCGAGATTTG-TTGCAACCGTCGATCCGTATTGCTGGAACTGGGTTTTTTTTTTTGCTGGAACCGTAGGGCACAGATG
CTACAAACATCATCAGCATGCAGCTCGCCGGCGATTTTTTTGCTTCAACCGATGATCTCATTTGCTGGAACTAGAGATTA
TTTTTGCTGGAACCTGCAAACGTTTT-GTT----------------TTGCGGCCGACGGCGCTAGTT-------------
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---------------------------CTTCGGCTGGCTGCGAGAAA-TTGCTACCACCACAGGTGCTGGAAGCAGTGCC
CATTGGTGCTGGAACCGGACACGGCCTTGCCGCTGCGGTGTTATTTTTGCTGGAACCACTCTTCTTTTTTGCTGGAACTG
ACTAGTGTTTT----------------------TGCTACCAACGACTC--------------------------------
---------------------------------CTGGTGTTTTTGTTGCTGCGATTTTTTTGCTGGAACCGATGTTA-TT
TTTTGCTAGAACCGGCTAATTTATTTGATTCAACGAGGTTTTGAGTTTCTTTGCTGGAACACGGCGGTGAGTTGCGACGA
CGTCGAGCAAGAGGCGGTGACGCTGGGGTCCTACAACCATGGCGACCACGCGCTGGAAACGGCCGGTGATAGAGCTGCAG
TCGTCAATAGAAGGAGCTGGGACCACTCACGGCCA-TGCTGCAACAATCCCTACGGCCGCCGGCGAGGGCGGCAAGCTGC
AGTCCGGGGCGGCAAGCTGCAGTCC-------------------------------------------------------
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-----GGTGATGATGCGGCGGTGCTGCAGCGGTTAGCGACGGAGC------------------TGCGTGCCACTGCATCG
TTGAGGCGGATGACAAGCGTAAAG-----------------------------------------ATGGAGGCAGACACC
AGCGCGCGGAGGAAGAAGAGGAACTGCGTT------------------------------------------------GA
CTTGGTGAGGATTAGATCTAATGGTTAATAGA-GGGTAAATCGTG-----------------------------------
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-------------TGGCTGCGACTTGACCGGCCCAAATTTGGGCCGGTGCGCCGGCGCGTATTACTGCCCAAA-------
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>chr3D_3
--GCGACATTTGTTTGCAAGCGTTGATCTGTATTGCTGGAACCAGAG--TTTTTTTTGCTGGAACCGTGGGGCACAAATG
CTACAAACAGCATCACCATGCATCCCGCCGGCGAAATTTTTGCTTCAACGGACGATCTCATTTGCTGGAACTAGGGAATA
TTTTTGCTGGAACCGGCAAACGTTTT-GTGCCGCGGCCATGGCTTGTTGCGTTCGGCGGCGCCAGTT-------------
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---------------------------CTTCGGCCGGCTGCGAGGAGTTTGCTACCACCACGTTGTGAGG----------
-----------------------------------------------TGCTGGAACCACTCTTCTTTTTTGCTGGA-CTG
ACTAGTGTTTT----------------------TGCTACCATTGAGTA--------------------------------
---------------------------------CTGGTGTTTTTGTTTCTGTGAACTTTTTGCTGGAACCGATGTTATTT
TTTTGCTGGAACCGGCTAATTCTTCAATAAGGT-----TTTTGAGTTTCTTTGTTGGAACACGGCGGTGAATTGCGACGA
CGGCGAACCAGCGGCATTGACGCTGGAGTGCTACAACCATGGCAACCACGCGCTGGAAACGAC------TAGAGCTGCAG
TCGTCAACAACAGGAGCTGGACCCCACTCGCGGTCGTGCTACAACAATCCCTGCGGCCACCAGCGAGGACGGCAA-----
------------------GCAGTCC-------------------------------------------------------
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-----GGTGAGGATGCAGCGGTGCTGCAATTGTGTGGGACGAAGC------------------CGTGCGCCGCTGCATCG
TTGAGGCGGACGACAAGCATAGAG-----------------------------------------ATGGAGGCAGACACC
AGCG----GAGGAAGAGACGGG-CTGTGTT------------------------------------------------GA
CTTGGTGAGGATTAGATTTGATTCTAGTAGTAGGGGCAAATCGCG-----------------------------------
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-------------TGGCTGCGAGGTGACCGGCCCAAATTTGGGCCGGCGCACCGACGCCTATTACTGCCCCAAA------
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>chr3D_833
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---------------------------------CCAAAAGGTTTTCTATGAAATGACGTCGGG-CTCTCACTCATTGCTC
GGTTTACAATAT---TATAAAAAACTGTGTCGGTGGGTGAATCAGCTAGCGCAGCCCAACGTTGACGAAGAAACCCAGTC
GTGCGCCTATTTATATACCCGGAGCATACGACACGAGAGGATTCAACCATG-----GAAGCCATGGCGTCATCGTCGTCG
GCGGCTAAGCCTAAGCCCAGCACCACCCTCCGCGTGGCCGCCTTCAG-CGGCTCCCTCCGCAAGGGCTCGTGGCACGG--
---------------CGGCCTCATCCGCGCGGCCGAGGAGCTGTGCGAGGAGTCCAT-----------------------
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-----------------------------------------------------------CCCGGAGCTGCAAATCGACCA
CGTCGACATCTCCGGCCTGC----------------CCATGTCCAACCCGGACCTGGAG---------------------
----------------------------------------------------ACGGACGACGGCGACGGCTTCCCGCCGG
ACGTCGAGGCGTTCCGGGACAGGGTCCGCGCCGCCGACTGCTTTCTCTTCGCCTCGCCCGAGTACAACTACTCCGTGACC
GCCACGCTGAAGAACGCGCTGGACTGGGCGTCGAGGGGCACGCACAAGTGCTGGGCGGACAAGGCCGCGGCCATCGTCTC
CGCGGGCGGCAGCTGCGGCGGGGGCAGGGCGGCGTTCCACCTCCGCCAGATCGGGGTGTTCCTGGACATCCACTTCATCA
ACAAGCCGGAGCTCCAGGTCAGGGCGTACGAGGACCCGCCCAAGTTTGACGCCGACGGGAACCTCGTCGACGCCGAGACG
AGGGAGCGGCTCAAGCAGGTGCTCCTCTCGCTGCAGGCCTTCGCGCTCCGGCTCCAGCACTAACTAGCAGGAGCGGAGGA
CTGAGCGAAGAAGAAACTTGGCACCGTGCGATTACCTAAACGTTAATCTGCATTTTCCTTTGCGTGTTGGATATGTAGGT
ACTTTTGACTATTTCACTTTCTTTTAGGGGTTACTTTTCACTTTTGTTGGGCGGAATACATTTTGCTCTGTATTCGTGCA
CC-AGTCTTTATGTGGTTCTGTAAGAAAGAGTAAGCTGCTGTAAACAGT-----GTGTTTGTAAGAAATCACGCAAGTAC
CCTTTTTATAAACG-TTTCGTTAAGTTTTACTCGACTGGTTTA-------------------------------------
---------------------------------------------------------------------AGTCTCGGTCA
ACACTGAGATCTGTCATAGAGAGCCGTGCAAAATATAAGTTTT-------------------------------------
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>chr3A_833
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---------------------------------CCAAAAGGTTCTCTACGAAATGACGTCGGG-CTGTCACTCATTGCTC
TGTTTTATAATACAGTATAATAAACACTGTCGGTGGGTGAATCAGCGAGCGCAGCCCAACGTTGACGATGAAACCCAGTC
GAACGCCTATTTATA---CCAGAGCATATGACACGAGAAGATTCAACCATG-----AAAGCCATGGCGTCATCGCCGGCG
GC---TAAGCCTAAGCCCACCACCACCCTCCGCGTGGCCGCCTTCAG-CGGCTCCCTCCGCAAGGGCTCGTGGCACGG--
---------------CGGCCTCATCCGCGCGGCCCAGGAGCTGTGCGAGGAGTCCATCCCGGCAGTGGCGGAGCTACCAT
AAAAAGGTTGGGCGGGCCAGACACTGCAAAGTGTGCTACCAAACTGCAATGTTATGGGTTGGGCTTCCTATAAAATGTTT
TTTCCCTTCGGTCCTGGGCGGGCCATGGCCTATCTGGCCTTGTTGTAGCTCCGCC-------------------------
----------------------------------------------------GGTGCATCCCGGGGCTGCGAATCGACCA
CGTCGACATCTCCGGCCTGC----------------CGATGGCGAACCCGGACCTGGAG---------------------
----------------------------------------------------ACGGACGACGGCGACGGCTTCCCGCCAG
ACGTCGAGGCGTTCCGCGACAGGGTCCGCGCCGCCGACTGCTTCCTCTTCGCCTCGCCCGAGTACAACTACTCCGTCACC
GCCACGCTGAAGAACGCGCTGGACTGGGCGTCGAGGGGCAAGCACAAGGGATGGGCGGACAAGGCGGCGGCCATCGTCTC
CGCGGGCGGCAGCTGCGGCGGGGGCAGGGCGGCGTTCCACCTCCGCCAGATCGGGGTGTTCCTCGACATCCACTTCATCA
ACAAGCCGGAGCTCCAGGTCAGGGCGTACGAGGACCCGCCCAAGTTCGACGCCGACGGGAACCTCGTCGACGCCGAGACC
AGGGAGCGGCTCAAGCAGGTGCTCCTCTCGCTGCAGGCCTTTGCGCTCCGGCTCCAACA---------------------
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>chr3B_1127
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-------------------------------GCCGAGGAGCTGTGCGAGGAGTCCATCCCGG------------------
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----------------------------------------------------------------GGCTGCGCATCGACCA
CGTGGACATCTCCGGCCTGC----------------CCATGGTCAACCCGGACCTGGAG---------------------
----------------------------------------------------ACCGACGGCGGCGAGGGCTTCCCGCCGG
CCGTCGAGGCGCTCCGCGAGAGGGTCCGCGCCGCCGACTGCTTCCTCTTCGCCTCGCCCGAGTACAACTACTCGGTCACC
GCCTCCCTGAAGAACGCGCTGGACTGGGCGTCCAGGGGCAAGCGCAACTGCTGGGCGGACAGGGCGGCGGCGATCGTGTG
CGCGGGGGGCGACTTCGGCGGGGCCAGGGCGTCGCTCCACCTCCGCCAGATCGGGGTGTTCCTCGACCTCCACTTCATCA
ACAAGCCGGAGCTCCACATCAGGGCGTTCGCGGACCCGCCCAAGTTCGACGAGGAGGGCAACCTCATCGACGCCGTGACC
AGGGAGCGGCTCAAGAAGGTTCTCCTCTCGCTCCAGGCCTTCGCGCTCAGGCTCAAACACAAGGAC--------------
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>SNPs
-----------------------------------------------S----------------S---------------
---------S--S------------------S------------------------------------------------
--------S-----------------S---S-------S----S--S---S-------------S--SSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS--S---------------------------S----------------
------------S-------------------------------------------------------------------
-------------------------------------------------SSSSSSS------------------------
-------------S------------------------------------------------------------------
----------------------------------------------S---------------------------------
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-----------------------------------------------------------S--------------------
------------------S-------------------------------------------------------------
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--------------------------S-----------------------------------------------------
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-------------S------------------------------------------------------------------
----S---------------------S-----S-S--------------------S------S-------------SSS-
-SS-S--SSSS---------------------------S-------------SS-SS--------S--S------S-SSS
-SS-----S-------------S-----------SSSSSSSSSSS-SSSSSSSS---S-------S--------S-----
--S-----------S---S------------------------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS------S----
---S------S-S----------------S----S-SSS----SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSS----S--S--S-S-S-S-----SSSSSS--SSS-SSSS--S-SS-SS--SSSSSSSS-SS-SSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSS
>forward_737
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-----------------------------------------------------------------------------GAA
GAGACGGGCTGTGTTGA---------------------------------------------------------------
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>reverse_2936
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-------------------------------------------------------ACCAACAAGTGAAGCACCCA-----
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--------------------
