>input_sequence_84197
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--------------------------------------------------------ATGGAGGCGGCGGAGCTGCCGGAC
GTGCCGGAGGATCCGACCATCACGCTTGTCCGGAAGATCAGCTTGGAGACGTGGCAGAATCGCCATGTCAAAGCAAAGGG
CGCAAAGGAGGAGAAGATGAGGAAGCATCTGGCCGCCGGTGGGCCTGGTGGTGGCGATGGTCCGGGCCGACGAGGTGGAC
TGGGCAGTCGGCGAGGCTGTGGTGGACGCCGCCAGACGGCCGCGCCCATAGTGCTAACGGCGCCGTGGCCAGAGCCTTAC
AAGTATCCATACTACTACGCCGCCAATTCGGAGGACGCCAAGATGTGA--------------------------------
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>chr3A_1_TraesCS3A01G473200
TGCCTTGTACTATCTCGTTTGCTAGCTGAAGCCTTCGTGCATGTTCACAGTCCAAACCAACTGCGCACTGTTGTCCTGAC
GTACCATGCACGGTCGGGCACATGACACA--GAACACCACACGCTTTTTACCGCTTCGATGG---TACTGCTACCAGTTT
GTACCGCCGTTTTACTGCCCTGGCGACAGTGAGTTCACGAGTTAGTTGGCCACCATCGCCGCTTTCGATTTGGCATCCAA
GAGCATCTCCAGCGCCGACCAGTAAACCTCCCGCAACCGTTCGGATCAGGTTGTCCGGACCGTAAAATCCATCTAAGGCT
GACTTCAGGTTGTCCGGACCGTAAAATCCATCTAAGGCTGACTTGTATCGGTCCGTGGAGTGGTACGGACGTGATCTCTC
ACGCAAATCGGAGATAAACATGTGTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNAGTCTCCTGGAC---------------------------------------------------
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----------------------------------------CACTCAAAAGAAGGGCCGAGCCCACGCTTTTGTAGCATCA
TGCACTGTTTCCGCGCCAAAATTCCCCACTCTTTTCTTCCACTTCACGCCGCTCTCCGTCCAATTCTCGCTATTTTCTCC
CACCCTCTCCTTCCCTCCACTGCCGACGCATAGAACCGTTGGACAACTTGTCGGAGATGGAGGCGGCGGAGCTGCCGGAC
GTGCCGGAGGATCCGACCATCACGCTTGTCCGGAAGATCAGCTTGGAGACGTGGCAGAATCGCCATGTCAAAGCAAAGGG
CGCAAAGGAGGAGAAGATGAGGAAGCATCTGGCCGCCGGTGGGCCTGGTGGTGGCGATGGTCCGGGCCGACGAGGTGGAC
TGGGCAGTCGGCGAGGCTGTGGTGGACGCCGCCAGACGGCCGCGCCCATAGTGCTAACGGCGCCGTGGCCAGAGCCTTAC
AAGTATCCATACTACTACGCCGCCAATTCGGAGGACGCCAAGATGTGAACCTTGAATATCGACTCTTTGAATGCTGACGC
TAGAATTATCATACAATCCGTTCGCTATCAGATGTTGGAGCGGCAGAAAGATCAGTTGGCGGTGGTGCAAGATGAGGACG
CGGTGGATGCCTACGCGTTGGCAGCGGCACCTCCTTGATCGGGAAACATCTTGCTGGGATGGCTGGTCCGGTCGGGCAGA
AATGCACGCACTGCCGTACTGATGTTTTATTGGATTCGGGCATGTAAAAAGTAAGTATATTTGCTTTATTTTAGTTGTGA
TCGGGGATGCGATCCGGCATGGGTGTGATCTAGCGCATTGTCTGGGTCATCGTAGATTTGAATTTGAATTTACTGACAGA
CAATATGCGGCTTGCGTTGGATGACTGCCTCCCGCATCCCTG--------------------TCTGCGGAACGGAAGAT-
TTTTTTCCAGGTTGCTATGCCCTAACGGCAGGAAGAGCATCACCGAGCTGGGATCCGTGGGTCTTAATTACCATGTGG-T
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----------------AGGAGCCTTTGCTATCAGCCTAGCTAGCTCTTCACCTGCAGCGTCCATTTCCGACACTGCAGTG
TTACCTTGGTAAATGTAGTGTGAAGAT---------------------AATTTAGCGAGGTTGCGGTGAAATTTAGTGAG
ATCCATCGGTTTATATTCAATCTCCGTTAGTTTTAGCACGCGGGGGTAAGTTCAGCTATATATGCGTCCTCTAGACAAAA
CACAAAGCTAAGTGACCACCCATCGACCCATCTGTATGAGTAGGTTGCCAGGAGTAAATCAAGAAATTAACCGGTGGTGG
TGATTCATCCGATGCATTAGGGAAGAATAATCAAGATTATGTTTGCTGCCGGTTGTTTGGATGAA--CTGGGAGCTACCA
GCAGAGCATGTGTGTGTTTGTCCTTTTCATCAAGAAGATTCGCCTGATTTTGAACGTGCTGCGGGAAGAAAAGCTTCCCA
GTGTGGATTAAGGAGCTAGCCTAAGCCCGCTTAGGTAGGCAATC-GACCATTCACGTGCTTGTGTGCTTG
>chr3B_1
TGCGTTGTACTATCTCGTGTGCTAGCTGACGCCTTCGTGCATGTTCGCAGTCCAAACCAACTGCGCACTGTTGTCCAGAC
GTACCATGCACGGTCGGGCACATGACACACAGAGCACCACACGCTTTTTACCGCTTCGATGG---TACTACCACCAGTTT
GTACCGCCGTTTTACTGCCCTGGCGACAGTGAGTTCACGTGTTAGATGGCCACCATCGCCGCTTTCGATTTGGCATCCA-
GAGCATCTCCAACTCCGACCAGTAAACCTCCCGCAACAGTTTAGATCGGGTTGTCCGGACCGTGAAATTG----------
-----------------------------ATCTAAGGCCGACTTGTATCGTTCCGTGGAGCGGTACGGATGTGATCTCTC
CCGCAAATAGGAGATAAACATGTGTGTGTGTGAGGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGGGGAGTCCGAACACACAAAACGTCACTCTCACTACTAGG
AAAAGAGCTATAGATAATATGGACATTAATGATGTGGTGCGCCACTACTATATAGTAGTGGCGCACCACATATAGATACG
TCATTAAACTCCAAATACTAATGGCGCACCACATTTACGGTGCGCCACTACTAACATTTTTTTTTTCAAAACTAGTAATG
GCGCACCACACCCTCGGTGCGCCACTACTAACAATTTTTTTTTATTTTTTTTCAAAACTAGTAATGGCGCACCGTAGGTG
AACTAGTAATGGCGCACCACTCACACGGTGCGTCATTACTAACTTTGACCCAAAATTCCACCGAATGGACCCCCCTGGAC
CGCCTTTTCAGTTTAAAAAAAATAAAAGAAAATGATGGAAATGACAAAAACATAAAAGGAAATAAGTTTTCCATGTGATA
TGTTGTCTACTTGTTGGGAAAATTTACAAATATGAACTTCGACTTTATTTGCAAAATCTCTTTGGAATTTGTAAAATGGG
CATAACTTTTGCATACGAACTTGGATTAAAAAGTTTTTTATATGAAAAATCATCTACTCGAAAACTTACATTTTCAAAAT
TCTCAAAAACCTAACAGAAAAAAAAGTTACGAGGCTTTTAAGATCTAGAGGGGGTAAAATGGAAAAAAAATTCTAACTTA
CTAGTGGCGCACAATTTGCTAGGTGCGCCACTAGTAACCGAAAAAAATTGGTTTCGATTTTAAAAAAAAAATTCAACAAA
TTATACGTAATATTACCGGGAAGTTTGAAATATTTTTCAAAATTTCATCATACTCATGAACATGAACAAAGTCCTAGACG
TCAACAAGGTTTAATAGGATTGATATGATAGATATATCAACAAGTGCCTGTTAAGTGAGGTGGTGCTGGGGTTAGATGGA
ACTGCGAAGTTATGCGTGCTTGGGCTGGAGTAGTGTGAGGATGAGCGACCTTCCGGGAAGTTTGACCACTTAGCGCGATT
TGAATTGAGATTAAGCATATTGACCCGAGATTAAGCCATAGTGACCTGATTTTAAAAAAAAAATCTGTATTTTTTAAAAA
AAAATGTTAGTAATGACGCACTTCTATATGGTGCGCCATTACTAAGTCAGATAGTAGTAATGGCGCACCGTGTGATATAC
CAATGGCGCACTCCCTGGTGCGCCATTAGTATCTGGTATATTAATGGTGTGCGCCATTAGCGGCCAAAAACAGGTGTGCC
ACTAGCAAGGCTTTTCCTAGTAGTGTCTCCGCCCCTAGATCACTCAAAAGGAGGGCTGAGCTCGTGCTTTTGTAGCATGA
TGCACTGTTTCCGCGCCAAAATTCCCCACTCTTTTCTTCCACTTCACGCCGCTCTCCGCCCAATTCCCGCTATTTTCTCC
CACCCTCTCCTTCGCTCCGTTGCCGACGCACAGAACCGTCGAATAACTTGTCGGAGATGGAGGCGGCGGAGGTGCCGGAC
GTGCCGGAGGATCCGACCATCATGCTTGTCCAGAAGATCAGCTCAGAGACGTGGCTGAATCGCCACGTCAAAGCGACGGC
CGCAAAGGAGGAGAAGATGAGGAAGCATCTGGCCGCCGGTGGGCCTGGTGGTGGCGATGGTCCCGGCCGACAAGGCGGAC
TGGGCGGTCGGCGAGGCCCTGGCGGACGCCGCCAGACGGCCGCGCCCATAGTGCTAACGGCGCCGTGGCCAGAGCCTTAC
AATTCTCCATACTACTACGCCGCCAATTCGGAGGGCGCCAAGATGTGAACCTTGAATATCGACTCTTTGAATGCTGACGC
TAGAATTATCATACAATCCGTTCACTATCAGATGTTGGAGTGGCAGAAAGATCAGTTGGCGGTGGTGCAAGATGAGGACG
CGGTGGCTGCCTACGCGGTGGCAGCGGCACCTCCTTGATCGGGAAGCATCTTGCTGGGATGGCTGGTCCGGTAGGGCAGA
A-TGCAAGCACTGCCGTACTGATGTTCTTTTGGATTTGGGCATGTAAAAAGTAAGTATATTTGCTTTATTTTAGTTGTGA
TCGGGGATGCGATCCGGCGTGGGTGCAATCTAGCGCATTGTGTGGGTCATCGTAGATCTGAATCTGTATTTGCTCACAGA
CAATATGCGGCTTGCGTTGGATGGATGCCTTTCACATTCATGTCTGCGGACTGATACCCTTATCTGCGGAACGGAAGTTA
TTTTTTCGAGGTTGCTATGCCCTAACGACAGGAAGAGCATCGCCGAGCTGGGATCCGTGGGTC----TTACCATGTGG-T
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----------------AGGAGCCTTTGCTATCAGCCTAGGTAGCTCTTCACCTGCAGCGTCCACTTCCGACACTGCAGTG
TTACCTTGGTAAATGTAGTGTCAAGAT---------------------AATTTAGCGAGATTACGGTGAAATTTAGTGAG
ATCCATCGGTTTATATTCGATCTCCGTTAGTTTTTGGACGCGGGTGTAAGTTCAGCTATGTATGCGTCCTCTAGACAGAA
CACAAAGCTTAGTGACCACCCATTAACCCATCTGTAGGAGTAGGTTGCCAGGAGTAAATCAAGAAATTAACCTGTGGTGG
TGATTCATCCGATGCGTTAGGGAATAATAATTAAGATTATGTTTGCTGCCGGTTGTTTGGATGTACTCTCGGAGCTACCA
GCAGAGCATGTGCGTGTTTGTTCTTTTCATCGAGAAGATTCGCCTCATTTTGGACGTGTCACGGGAAGAAAAGCTACACA
GTGTGGATTAAGGAGCTAGCCTAAGGCCGCTTAGGTAGGCAGTCAGACCATTCACGTGCTTGTGTGCTTG
>chr3B_6
-----TGTACTATCTCGTTCGCTCGCTGAGGCCTTCGTGCATGTTCAAAGTCAAAACCAGCCGCGCACTCTTGTCCTGAC
GAGCCATGCACGGTCGATCAAATG--ACACAGAACACCACACGCTTTTTACCGCTTAGATGG---TACTACGTCCAGTTT
GTACCCCTGTTTTACTGCCCTGGTGACAGTGAGTTCACGTGTTAGTTGGCCACAATGGCGGCTTTCCATTTGGCATCTAG
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--------------------------TGACAGGAAGAAGACAT-------------------------------------
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----------------------------CCGCCAGGTTC-----------------------------------------
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----------------------------------GAGCATGGCCGAGATGGGATCCGTCGGTC----ATACCATGTGGGT
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----------------AGGAGCCTTTGCTATCAGCCTAGCTAGCTCTTCACGTGCGCTGACCATTTGTGACCCTGCGATG
TTACCTCTGTAAATGTAGTCCAAAGATAATTTAATTAGATTCTGATGAAATTTAG---------------------TGAG
ATTCATCGGTTTATCTTCAATCCCCGTTAGTTTTT----GCGTGTGTAAATTCAGCTATGTATGCGTCCTGTAAACAGAT
CACAAAGCTGAGTGACCAT-CATCAACCCATCAGTAGGAGTAGGTTGCCAGGAGAAAAGCACGAAATTAACATGTGGTGG
TGATTCATCCGATGCATTAGGGAATAATAATTAAGATTATGTTTGGTGCCGGTTGTTTGGATGTACTCTCGGAGCTACCA
GCAGAGCATGTGCGTGTTTGTTATTTTCATCGAGAAGATTCGCCTCATTTTGGACGCGTTGCGGAAATAAAAGCTACCCA
GTATGGATTAAGGAGCTGGCCTAAGCCCGCTTAGGTAGGCAGTC-GGGCATTCACGTGCTTCTGTGC---
>chr3A_63
--------------------------------------------------------------GCGCACTGTTGTCCTGGC
GTACCATGCACGGTCGATCAAATG--ACACAGAGCACCACACGCTTTTTACCGCTTCGATGGGAGTACTACTTCCAGTTT
GTACCGCTGTCTTACTGCCCTGGTGACAGTGAGTTCACGTGTTAGTTTGCCACCACGGCCGCTTTCCATTTGGCATCTAA
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--------------------------TGACAGGAAGAAGACAT-------------------------------------
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----------------------------CCGCCAGGTTC-----------------------------------------
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----------------------------------GAGCATTGCCGAGATGGGATCCGTGGGTC----TTACCATATGTGA
GGGCATCTCCAGCCGCATTCTAGAAAGGCCTCCTCAGATGTTTTTTTTGCGCCGGCGTCGAAAAATCGACCCAGTCGCGT
CCCAGGAGCCTGATTTTCATCGGCTTGGGCCGAAAACAGCGCAGGCGGATCCAGGCCAAACCCGGCGCGTTGGGGGGCGC
CCGGGGGCGCCGGGGCGAACTGTTTTGGCGCGAAACAGCCGCAGGCCCGCCGCGTCAGCGACTCCACCCTCTTCTCGCCT
CTTCATCGTCCTCATCGCCTTGTTTCCCGCGGCGAATCAATGCCAAAGCTGCCACGCTGCCGCGCCGGTCAGCCTGCGCC
ATTGATGTCTCACGGGCGGCGCAGTGAAGACCGGATGACGCGCGTCCCTCGCCCTCCCTCGCCCGCCACGCGTACTCACG
GCGGCTCGCGCACGGGCGGCGCCTCGTCCTATATAAGACGCGCCCCAGCGCACTCGGCGACTCGTACTCTCTCGCCGTCG
TCGTTCCTCCCTCTTCTCTCTCTCGCTGTCGTCGTTCCTCCCTCTCCTCCCTCTCCTCTCTCTCGCCGTCTCGAGCACCC
ATGGCCGAGCGCTTCCCAGGCGACGGCGCGGCGGCGAACGGCTTCGGCCGCCGCCATCCTTACGAGAGTGAGGCTCGCCT
CCTTTTCGAGGCCGAGTATCCGGTCCCGCCGGACATGCGGGTACCCGGGGCGTGGAGGATCAGCGCCAACGGCGTGCCGG
TGCCTCCGATACCCACCGGCGCGGCACGGCATGCGGAAATCGCACGCATCCGCTCGTCCCTGCCGCGTGCGGCGAGGGAG
GGGCCACGGTACGTCCCCGACAGCCCGCTCTGGGAGCCCTACTTCCACCGCCGTCACGCCGAGCAGCTCGAGGCCACCAA
TGGCGTCGAGCCCTCTGGCAGGCTCAACGCCGTCGGCCGGCGTCGGTGGTGGGGCGTGCCCGGACGCACGTTGGAGGACG
TCCTCGAGTACATCGAGGGCGGCAACACGCCGCGCCTCGAGTACCCCGCTCCCCCGTCTTTCACACGCCGCCGGGGAAGC
TCCTGGACCCCGAGGCGCATGAAGACCGGGAGGTCCTCCTCCTCGTCCGGCGGCTCCCCGTGCCTCCACCTCCGCCCCGT
CAAGCCGGAGCCCCAGGGCGCGCCTTTCAGCGCGCGCACCCGCAGCTCCGGCGTCCGCATCGGCCACAACGCCTTCCCCA
CCGGCCGCTTCGTCCTCGTCGAGCCCAAGCCGGAGCCCAAGCCGGAGCCCGGCCTCCCCCTGGAGTACGAGGAGATAGCC
CGGCGTGGCTTCTCCGACGAGGACGCCCTGCGGTGGGCGCGGGACGACTACCTCCGCGACGAGATGGTCCGGCAGCGCCG
GGCCCTGGAGGAGATCGCCGCCCGCAAGCGTGGGCGCGAGGACGAGCACGGCGTCGTGGTCCTCAGCGACGACGACGACG
ACGACGCCCCCAGACCGTCCAACCTGCCGCGCCAACTGGGGGAGGGATGCAGCAGGGACGGCGGAGGCGTCGGCGGGGGC
GACGACGACGACGACGATGACGACGACGACGGCAGTGACTACACGCGGTTCTACCGCCTCCTCGGCATGTAGAACCGCTT
GGGCGGGCGGCGAGGGAGACGGCGGGGGTAGCCCGCGGTAGTTTTCCCTTTTTTTATAAAGTATGTTTAAATTTGAACGA
ACTCGCCGATGTCTGCGTTAAATTTGAGTCGTGTTTGCGCCGTATTTGACTTTTTTAAAAACCCGTGGGGCCGCGACTGG
GGGGTATCACGCCCCCAATGCGCGGTTTAGCGCCGGTGCGCCCCCAGGGGGCGATTTTTTGCCCCTCCTGAGGGGCCAAC
GGCTGGAGATGCCCTGAGGAGCCTTTGCTATCAGCTAGC--AGCTCTTCACGTGCACTATCCATTTGCGACCCTGTAGTG
TTACCTCTGTAAATGTAGTGTTAAAGT---------------------AATTTAA---------------------TGAG
ATCCATCGGTTTATCTTCAATCACCGTTAGTTTTA----GCGTGTGTAAATTCAGCTATGTATGTGTCCTCTAGACAGAA
CACAAAGCTTAGTGACCACCCATCAACCCATCTGTAGGAGTAGGTTGCCAGGAGTAAAGCAAGAAATTAACCTGTAATGG
TGATTCATCCGATGCTTTAGGGAATAATAATAAAGATTATGTTTGCTGCCGGTTGTTTGGATGTACTCTCGGAGCTAGCA
GCAGAGCATGTGCGTGTTTGTCCTTTTCATCCAGAAGATTCACCTGATTTTGGACGTGTTGCAGGAAGAAAAGCTACCCA
GTGTGGATTA------------------------------------------------------------
>SNPs
---S-------------------------S--------------------------------------------------
---------------------------------------------------------------------S----------
---------------------------------------S----------------------------------------
-----------S-S-----------------------S---SS----S---------------S----SSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSS---------S-----------S---------S--------S----------
S-------S----------------SSSSSSSSSS---------------------------------------------
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----------------------------------------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSS-SSS-SSSSSS---------------------------------------------------
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--------------------------------------------------S-----S----S-SS-------------S-
----------------------------------------------------------S-------S-------------
-------------S----SS----------S--------S-S-S---------------------------S--------
----------------------S--------------------SS----------S---------S--------S-S--S
---------------------------------------------------------------S-------S---S----
-----S-----------SS---S---------------------------------------------------------
--S-S-----------------------------S---------------------------------------------
-----------------------S----------------S---------------------------------------
------S----------S---------------------------S--------------------------S-------
-S----S-------------------S-S-------S-------------------------------------------
------------------S------SS--------------S---------------S-----S--S----S--S-----
-----------------------SS-----SS-S---S-S-------------------------------------S--
-------S-------------------S-------------S---------------------SSSS-------------
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---------------------S-------------------------------------S--S-----------------
------------------------------------S-------S--------------S-----------------S--
---------S--------------S-----------S-----------------------------------S-------
------------------------S------S-------------------------------S-----S----------
------------S------------------S--------------------S-----S----------------S----
-----------------------------------------S----------------------------
>forward_345
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-----CAGGTTGTCCGGACCGTAAA-------------------------------------------------------
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>reverse_2760
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---------------------------------------CTGTCTGCGGAACGGAAGAT---------------------
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