>input_sequence_67124
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-----------------------------------------------------------------------------CCA
GCCATACCGTGTCTCTCTCATCTCACTTCCTCTGTCCTCTCCTGTATCTTTCTCGCCAACCACAGAGTGGCACTGAGATC
GCAATCCAGCTGGAAGACCATCCTACAGTCTGCAGCATTGCCATGGACGCCACAAAGACAGCAGCCAAGGCTGTGGCGGC
AGGCAACGGCGACGCAGACGCCGCGCCGTCGACCCGGCGGACGGCGGCGCCGAGGCCAGTACCTCGGCGGGACGAACCGC
TGGCAGGAGAAGGCGGGGCTGCGGCCGACCCGGCGCCTGCGACGGCAACAACAGGCGCTACTGTTGCGGAGAGCGGCGTG
GAGGACGAGCAGGTGGAGAGGTTCTACGCGCTGTTGGCCAACATCCGGGCCATGAGGGGCATGAACGAGAGCGGGGGCGA
CGACGCCGGCGCGAGCACGGAGGGTGCCAGCGAGGTCTGCGGCGGCGGGAGGAAGCGCGCGCGCTGGGCAGAGCCGCCGT
GGAGGCCGGCTTTCAGGCTGGAGGACTTCCAGGACGCCAGCGCGTCCAAGAAGGACATGAATGACGACGGTGCCGCCAGC
CATCGGCGGCCGGGCAAGGAGACCAAGGACGAAGCGGCGGATGGCGGGAAGGAGGACGACGTGGCACGGAATGGCCGTGG
AGTCGTCACGCCGTCGTCAGAGAGGAAAGTTTGACTCTCTGTCGCCGTGCCGCTGATACTGGCTGCGCGCGAAACACGTG
TGGTCACGTGTTCTCCGTGGG-CG---CGTCGGTGGGTCATGGAGGAAAGCTCCAT--GCTCGCGCCTATGCCATGTCCA
GCGACACATTTTAAGCGTC-------------------------------------------------------------
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----TTACCTGCTGTTGAAAATAATTTTATAAGTGTTTT-----------------------------------------
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>chr1B_1_TraesCS1B01G245800
AAGAAGTAGTGGCATTTTAAAATTTTGAATAAAGTACTGTAGTATAGGACGGCGTTGCCGCTAGTGCTGGCAGGGGGCAC
GTCCTCGTCCCTCCATTATTTCCGGAAGAACGAGCGCTACCTGGCCAGGGCCTCAACGCAT--------ACAGTGTTGCA
CTTTGACCACGGTTACTCGGTATCCACAAGCCTGTCAGACACCACAGTGGACCGAATTTTACATTGCCTAGA--------
TAGAAAACTTGCGCTATGCGGCTCTGCTCTATTCCTGTTTTGTTTATTCTGATGGTGCGTTTTTTCTTCGTCCATGATTT
GTGAGGACGTTGCTGATGCTTTACGTATGCGTCGTGCCAGTGCAACGAATCATAAAAGGTGGAACTGCATCATTGCCACA
AGGCTTCAATTTTAAGATTGCAATCTAACATAAATGCCACGCGTGGTATTGAA----------C----------------
-------------------------CTTTCGTCATTCAATTCGCTACTACCTCTGCCCTGATTTATTGATCTTTTGTATT
TTATGCCATATTTTAATCATATATTTAACTGATAAAGTGTTAATGCATGTTACTGAAAGTTGTATATTGTTAAATTCGTA
CTTGATCATACCTTTTGATGATATTTTCTTTGATGACGTGAATCAATATTTTGTTAGCTCAAGCAAAGGTTAAAGTTTGA
TACAGTATAAAATACAAAAGGGGCAATAAAGCAGGACGGAAGGTAGTGGTTATGGGTATAAAATGTGCAG----TTTTTT
AGAGTCAAAATGTGCACATTTTAGCAGG------TACAGTACAGTATATCTTG--GTCATCCCGAATTACCTGACGAGCT
CGCGGATGCAGCAAACAGAGT-AGTACTACTTAG----------------------------------------------
--------------------CTTTGAATGTTTATGGCCATGTGATCAGAATCTGAACGCTTGCGCTGTGAAATTCC----
--------------------------GGAATTTAG---ATATAAGCAAATAATAACTTTATATAAACACGGAGTGTTAAC
AATTTCTAGCACGAATCACGGCAACCTCTATAAATTCACTCGCCATGAGCG------------------TCATGCAACCA
GCCATACCGTGTCTCTCTCATCTCACTTCCTCTGTCCTCTCCTGTATCTTTCTCGCCAACCACAGAGTGGCACTGAGATC
GCAATCCAGCTGGAAGACCATCCTACAGTCTGCAGCATTGCCATGGACGCCACAAAGACAGCAGCCAAGGCTGTGGCGGC
AGGCAACGGCGACGCAGACGCCGCGCCGTCGACCCGGCGGACGGCGGCGCCGAGGCCAGTACCTCGGCGGGACGAACCGC
TGGCAGGAGAAGGCGGGGCTGCGGCCGACCCGGCGCCTGCGACGGCAACAACAGGCGCTACTGTTGCGGAGAGCGGCGTG
GAGGACGAGCAGGTGGAGAGGTTCTACGCGCTGTTGGCCAACATCCGGGCCATGAGGGGCATGAACGAGAGCGGGGGCGA
CGACGCCGGCGCGAGCACGGAGGGTGCCAGCGAGGTCTGCGGCGGCGGGAGGAAGCGCGCGCGCTGGGCAGAGCCGCCGT
GGAGGCCGGCTTTCAGGCTGGAGGACTTCCAGGACGCCAGCGCGTCCAAGAAGGACATGAATGACGACGGTGCCGCCAGC
CATCGGCGGCCGGGCAAGGAGACCAAGGACGAAGCGGCGGATGGCGGGAAGGAGGACGACGTGGCACGGAATGGCCGTGG
AGTCGTCACGCCGTCGTCAGAGAGGAAAGTTTGACTCTCTGTCGCCGTGCCGCTGATACTGGCTGCGCGCGAAACACGTG
TGGTCACGTGTTCTCCGTGGG-CG---CGTCGGTGGGTCATGGAGGAAAGCTCCAT--GCTCGCGCCTATGCCATGTCCA
GCGACACATTTTAAGCGTC-------------------------------------------------------------
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----TTACCTGCTGTTGAAAATAATTTTATAAGTGTTTTGAGCCCACAGTAACATGGACGCATGTGCGTTTCTTCCCGGA
ATAAAACTTGCCCTGGTTCATCAGCAAAGCTAAAATCTTTGTACTGCATGCAGAAAAGATGTA-------CCCACGCTAA
GGAATCCGATGCCACTGCAGGGCAATGCCGCTAGAGGTTATATATGCGGTCTTTCTCCACTGGATCAGAGTGTAATTCGT
TTGCGTGTACCTGACGAATCATATGAATATCATGGG----CTTTGGCAACTTAGATGCTACGGTGATCCGAGCTTTTGGA
CGGTTAGATCTCTGATCCTATGGCATCTGAGCAACTTTTGTACTTATG------TTCCAAACTCTCTGAAGGCTTTCCAG
TAAAAAAAATCAGACATTCTGGGAGCCATTGGATGTAAGACCCGGGAGGTCATATAACCGTATCATCTATGGTGCCGG--
------------------------AGCACCTGATATTCTTCCTGCATACCAAAGTAACAGATCATCGCAAGTGGCACCGC
TCGGTACACCATGTCCAAACGCAAATCACAAAATGGACGCCCAAACGTCCGTGGGCATCTAGC-AAGCGAAGGCCATCCA
ACCATGTTTTTAAAACTTTCCTGCTTTCAAATGATGAAAACACAAATTGTGGATGAAATTTAAGCTAAGTATGATA---T
ATTACATTACATGTAAACTAACAAAATTAACGAGTTTGATATATATTACATGCAAACTATCCCAAATTAAATTAAACTAA
ACTAATTTGAAACTAAGTAGAAAGCAGTAACGTATTAGGCATGGCATCCGAGACCACATGGACCGCCATCGCCGCCGTCG
-TTGTCGTTGTTGCTATTGACACCCGGGATACCACGGAAACGTGCTCACGCGTCAGGCTCCAGCCTCTGTGTTGCTTCCC
GCGTCCACCGCCGCCTTGCGCAA-CCTTGATTCTTCGGAGCTCGCGCTCTGACTAGATGACGCCGAGGAGGAGGAAGCCT
TCGCTGATCCGCGGTTGCGAGCATCAGTCTCCTTGGTAGTCTTGGACC
>chr1D_40
---------------------------------------TAGTATAGGACGGTGCTGCAGCTAGTGCTGGCAGGGCGCAC
GTCCTCGTCCCTCCATTATTTCAGGAAGACCCAG-GCTACCTGGTCAGGGCCCAACACATAAAGTTTTAACAGTGTTACA
CTTTGACCACGGTTACTCGGTATCCATAAACCTGTCAGACACCACAGTGGATCGAATTTTTCATTGCCTAGATACTAGAG
TAGAAAACTTGCGCTCTGCGGCTCTGCTCTATTCCTGTTTTGTTTATTCTGATGATGCGTTTTCTCTTCGTCCATGATTT
GTAAGGACGTTGCTGATGCTTTACGTATGCGTCGTGGCAGTGCAATGAATCACAAAAGGTCGAAGTGCATCATTGCCCCA
AGGCTTCAATTTTAAGATCGCAATCTAACATAAATGCCACGCGTAGTATTGAAGACAGAAGCAATGATCGCAATCTAACA
TAAATGCCACGCAATCTAACATAAGGTTTCGTTACTCAGTTCGATAATTCTGAGTAATCTGAAATTCTATAAACCGAGCT
GTGGTGTTGCCTAAAATGCAGC----------------------------------------------------------
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---------------------------------------------------------ATAAAATGTGCACATTTTTTTCT
CGAGTTAAAATGTGCACATTTTAGCACGTACTACTACAGTACAGTATATGTGT--GTCATCCCGAATTGTCTGACGAGCT
CACGGACGAAGCAAACAGAAT-ACATAATTTTGAATGATTAT---GCCCCCCATCTCGCAAAAAAAAATGATTATGCCCC
GCAAAAAG-AAAAAGAAAAACTTTGAATGATTACGACCATGTGTTCAGAATCTGAACGCTTGCGCTCCAAAATTCCGTTT
ACATA----------AGGTAAATACCGGCATTTAG---ACATAATCAAAAAAC----TTGTATAAATATGGAGTATTGAC
AATTTTTAGCACGAATCACGGCAACCCCTATAAATTCACTCGCCATGCCTCAGACGTTACTCCGCAGCATCAAGCAGCTA
GCCATATCTCGTCTCTCTCGTCTCACTCCT-----------CTGTTTCTTTCCCGTCGACCACAGAGTGACATTGAGGTT
GCAATCCAGCTAGAAGGCCATCCTACAGTCTGCAGCATTGCCATGGACGCCACAAAGACAGCAGCCAAGGCTGTGGCGGC
AGGAAACGGCGACGGAGACGCCGCTCCGTCCGCC------------GCGCCGAAGCCGGTGCCTCGGCAGGAGGAGCCGC
TGCCAGGAGAC---------GCGGCCGACCCGGCGCCTGCGAAGGCAACGACGAGCGCTACTGTCGCGGAGAGCGGCGTG
GAGGACGAGCAGGTGGAGAGGTTCTACGCGCTGCTGGCCAACATCCGGGCCATGAGGGGCATGAACGAGAGCGGGAGCGA
CGATGCCGGCGCGAGCTCGGAGGGTGCCAGCGAGGTCTGCGGCGGCGGGAGGAAGCGCGCGCGCTGGGCAGAGCCGCCTT
GGAGGCCGGCGTTCAGGATGGAGGACTTCGAGGACGCCAGCGCGTCCAAGAAGGACATGAAGGACGACGGTGCCGCCAGC
CATCGGCGCCCGGGCAAGGAGACCAAGGACGA------GGATGGCGGGAAGGAGGACGACGTGGCACGGAATGGCCGTGG
AGTCGTCACGCCGTCCCCAGAGAGGAAAGTTTGACTCTCTATCGCCTTGTCGCTGATACTGGCTGCGCGCGAAACACGTG
TGGTCACGTGTTCTCCGTGGG-CGCGTCGTCGGTGGGTCACGGAGGAAAGCTCCATATGCTTGCGCTTATGCCATGTCCA
GCGACACATTTTAAGCGTC-------------------------------------------------------------
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----TTACCTGCTGTTGAAAATAATTTTATAAATGTTCA-AGCCCACAGGTACATGGACACATGTGCGTTTCTTCCCGGA
ATAAAACTTGCCCTGGTTCATCAGCAAAGCTAAAATCTTTATACTGCACGCAGAAAAGATGTA-------CCCACGCTAA
GGAATCCGATGCCACTGCAGGGCAATGCCGCTAGAGGTTATATCTGCGGTCTTTCTTCACTGGATCAGAGTGTAATTCGT
TTTCGTGTACCTGACGAATCGTATGAATATCATGG-----CTTCGGCGAGTTAGATGCTATGATGATACGAACTTTTGGA
CGGTTGGATCTCTGATCCTATGGCATCTGTGCAATTTTTGTATTTATGCGTAATTTCCAAACTCTCTGAAGGCTTTTCTG
TAAAAAAAAC--GACATTCTGGGGGCCGTTGGATCTAAGATCTAGGAGGTCATATGACCGTATCATCTATGGTGCGGG--
------------------------A---------------------------AGTAACGGATCATCGCAAGTGGCACCGC
TCGGTACAGCATCTCCAAACGCAATCACCAAACGGACACCCCAAACGTCCACGGACATCTAGCCAAGCGAAGGCCATCCA
ACCGTGTTTTAC-AACTTTCCTACTTTCAAATGATGAAAACACAAATTGTGAATGAAATTTAAGCTAAGTATGATA---T
ATTACATTACATGCAAACTAACAAAATTAATGAGTTTGATATATATTACATGCAAACTATCCAAAATTAAACTAAACTAA
ACTAATTTGAAACTAAGTAGCGGGCAGTGACCTATTAGACATGGCATCCGAGGCCACATGGACCGTCAGCGCCGCCGTCG
-TTGTCATTGTTGCTGTTGACGCCTAGGATGCCACAGGTACGCACTCACGCGTCAGGCTCCAGCCTCTGTGTTGCTTCTC
GTGTCCACCGCCGCCTTGCGCAGCCCCTGCTCCTTCGGAGCTCACGCTCTGACTAGACGCCGCCGAGGAGGAGGACGCAT
GCGCTGATCCGCAGTTGCGTGCATTGGTCTCCTTGGTGGTCTTGGACC
>chr1A_40
---------------------------------------TAGTATAGGACGGCGCTGCAGCTAGTGCTGGCAGGGGGCAC
GTCCTCGTCCTCCTGGTCGGGGCCTCAAGA--------------------CCTCAACGCAT--------ACAGTGCTACA
CTTTGACCGCGGTTACTCGGTATCCATAAGCCTGTCAGACACCACAGTGGATCGACTTTTTCATTGCCTAGAGTGGGAAG
CTTGC---------------GCTCTGCTCTATTACTGTTTTGTTTATTCTGATGGTGCGTTTTCTCTTCGTCCATGATTT
GTCTGCACGTTGCTGATGCTTTACGTATGCGTCGTGCCAGTGCAATGAATCATAAAAGGTCCAAGTGCATCATTGCCACA
AGGCTTCAATTTTAAGATCGCAATCTAACATAAATGCCACGCGTAGTATTGAAGACAGAAGCAC----------------
-------------------------GTTTCGTTACTCAGTTCGATAATTCTGAGTAATCTGAAATTCTGTAAACCTAGCT
GTGGTGTTGCCTAAAATGCAGC----------------------------------------------------------
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---------------------------------------------------------ATAAAATGTGCACA-TTTTTTCT
CGAGTTAAAATGTGCACATTGTAGCACGTACT---ACAGTACAGTATATCTCTGTGTCATCCCGAATTGTCTGACGAGCT
CACGGACGAAGCAAACAGAATAACATAATTTTGAATGATTATTATGCCCCGCATCTCGCAAAAAAAA--GATTATGCCCC
GGAAAAAGAAAAAAGAAAAACTTTGAATGATTACGACCATGTGTTCAGAATCTGAACGCTTGCGCTCCAAAATTCCGTTT
ACATATCGACGCAAAAGGTAAATACGACATTTATAGACATATAATCAAATAAC----TTGTATAAATATGGAGTATTAAC
AATTTTTAGCACGAATCACGGCAACCCCTATAAATTCACTCGCCATGCCTCAGACGTTACTCCGCAGCATCAAGCAGCTA
GCCATACCTCGTCTCTCTCATCTCACTCCT-----------CTGTTTCTTTCCCGTCGACCACAGAGTGACATTGAGGTT
GCAATCCAGCTAGAAGGCCATCCTACAGTCTGCAGCATTGCAATGGACGCCACAAAGACAGCAGCCAAGGCTGTGGCGGC
AGGAAACGGCGACGCAGACGCCGCTCCGTCGACCCGGCGGACGGCGGCGCCGAAGCAAGTACCTCGGCAGGAGGAGCCGC
TGCCAGGAGACGCCGCGGCAGCGGCCGACCCGGCGCCGGCGACGGCAACGACGAGCGCTACTGTCGCGGAGAGCGGCGTG
GAGGACGAGCAGGTGGAGAGGTTCTACGCGCTGCTGGCCAACATCCGGGCCATGAGGGGCATGAACGAGAGCGGGGGCGA
CGACGCCGGCGCGAGCACGGAGGGTGCCAGCGAGGTCTGCGGCGGCGGGAGGAAGCGCGCGCGCTGGGCAGAGCCGCCGT
GGAGGCCGGCGTTCAGGATGGAGGACTTCGAGGACGCCAGCGCGTCCAAGAAGGACATGAATTACGACGGTGCCGCCAGC
CATCGGCGGCCGGGCAAGGAGACCAAGGACGAAGC---------------GGAGGACGACGTGGCACGGAATGGCCGTGG
AGTCGTCACGCCGTCGTCAGAGAGGAAAGTTTGACTCTCTGTCGCCGTGTCGCTGATACTGGCT--GCGCGAAACACGTG
TGGTCACGTGTTCTCCGTGGGGCG---CGTCGGTGGGTCGTGGAGGAAAGCTCCAT--GCCAAA----ATGCCATGTCCA
TCGACACATTTTTTTTTAGCATCAGTACAAACACAAGCGCTCATATACACGCGCATACACTCATTCCTATGAACGCACAT
ACACACATCCTACCCTTATGAGCACCTTCGAAAGACTGAGCCGACATATCATCTTGAGATTTACGAAGTCACCGTAGACG
CCTCATCATTGACGGGAACGTCTCCTCCCATTGAAAGCGCATCGCCGAAAATTCTGAAATAAATACAGGAATAATGCGAG
CACCAGAATTCGAACCCTGGTGAGTTGGGGATACCACTGTCCACCTAACCAACTCAACCACAGGTTGATTCGCATCGACG
CATTTTACCTGCTGTTGAAAATAATTTTATAAATGTTTA-AGCCCACAGGTACATGGACGCATGTGCGATTCTTTCCGGA
ATAAAACTTGCCCTGGTTCACCAGCAAAGCTAAAATCTTTATACTGCACGCAGAAAAGATGTACCCACGGCCCACGCTAA
GGAATCCGA--------------------------GGTTATACATGCG-------TCCACTGGATCAGAGTGTAAGTCGT
TTGCGTGTACCTGACGAATCGTATGAATATCATGGGTGGGCTTCGGCAACTTAGATGCTATGGTGATACTAGCTTTTGGG
AGGTTGGATCTCCGATTCTATGGCATCCGAGCAATTTTTGTAGTTATTCATAATTTTCAAACTCCCTGAAGGCTTTGCCG
TAAAAAAA-TCAGACATTTTTAGAGCCGCTGGATCTAAGATCCAGGAGGTCTTATGATCGTATCATCTATAGTGCGGGAG
CACTGGCATTCTTCCTGCATATCAA---------------------------AGTAACAGATCATCGTAAGTGGCACCGC
TCGGTAGAGCATCTTCAAACGCAATTACCAAACGGACGCCCCAAACGTCTGCGGACATCTAGCCAAGCGAAGGCCATCCA
ACAATGTTTTTGAAACTTTCCTACTTTTAAATGAT-AAAACACAAATTGTGGATGAAATTTAAGCTAAGTATGATATACT
ATTACATTACATGCAAACTAACAAAATTAACGAGTTTGATATATACTACATGCAAACATTCCCAAATTAAACTAAACTAA
ACTAATTTGAAGCTAAGTAGCGGGCAGTGACCTATTAGGCATGGCATCCGAGGCCACATGGACTGTCATCGCCGTCGTCG
TTTGTCGTTGTTGCTGTCGATGCCCGGGATGCCACGGGGACGTGCTCGTGCGTCAGGTTCCGGCCTCCGTGTTGCTTCCC
GCGTCCACCACCGCCTTACGTAGTCCCTGCTCCTTCGGAGCTCGCGCTCTGACTAGACGCCGCCGAGAAGGAGGACGCCT
TCGCTGATCCGCGGTTGCAGGCATCGGTCTCCTTGGTGGTCTTGGACC
>SNPs
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS---------------S---S---------------------
-------------------------------S--S---------S--------------------------------S--
--------------------------S------------------------S--------S-------------------
---------------S-----------------------------------------------S----------------
--S------------------------------------------S--------------S---S---------------
------------------S-------------------------S-----------------------------------
-------------------------S------S-S---S----S--S-S-SSSSSSSSSSSSSSS-SS--SSSSS-SSS-
S-SSSSSSSSS-SS---SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS------------S--------S-
S----S--------------------S------------------------SS---------------SS----------
-S----S-S----------S---SSSSSSS--SS----------------------------------------------
-----------------------------S---S-S-------S----------------------SSS-----------
--------------------------------------------S-------SSSSS--S------S-S-----S-----
-----S--------------------S--------------------SSSS---------------------S---S-S-
--------SS-----------------S-SSSSSSSSSSSS----S------S--S-S-----------S--S----S-S
-----------S----S---------------------------------------------------------------
---S--------------------S----------------------------S--------------S---S--S----
--S-------S-S--S---S-----------------------------S--SS----------S---------------
---------------------------------S----------------------------------------------
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----------S------S-----------S--------------------------------------------------
-----------------------------------SSS------------------------------------------
-------------------------------------------------S------------------------------
-------------------------------------------------------------S----S-------------
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--------------------------------S-----SS---------SS-----------------------------
----------------------------------------S-------S-------------------------------
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--------------------S----------------------S----------------S------S------------
-----S----------------------------S-------S---------------------------------S-S-
---------------------------S------S-----S--S-----------S-------------------S----
-------------------------SSSSSSSSSSSSSSSSSSSSSSSSSSS----------------------------
--------S---S-----------S-SS----SS-SSSS------------S--S-------------------------
-----------S----------S---------------------------------------------------------
-------------S---------------------------------------------------------S--------
--------------------SSS-----S--S--------------------S------------S--------------
---------------S-----S--------S------SS-----------------------------------------
----------------------S---S--S-S-------------------------S-S---------------S----
-------------------S-----S-----------S----------
>forward_539
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---------------------------------------TTCGCTACTACCTCTGCCCT---------------------
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>reverse_2908
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---------------------------ACAAAATGGACGCCCAAACG---------------------------------
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