>input_sequence_63425
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---------------------------AATAAGCAGCTCAAGGCACATCGAAGTATATTAGCTTCGCAACAACCAGACAG
AGCATTTACCGTGCAAGACCAAAATACCTCCCTCCCCTTCCAACCATGTCTAGGTCTGTGGAACCTCTTATTGTGGGGCG
GGTGATTGGAGAAGTTCTTGATACATTTAACCCATGTGTGAAGATGGTAACGACCTATAACTCCAACAAGCTTGTCTTCA
ATGGCCATGAGCTCTACCCATCAGCGGTTGTATCTAAACCACGAGTAGAGGTCCAAGGGGGTGACTTGCGATCCTTGTTC
ACACTGGTAAGTGCATTTAATTCAATCCGGGAACTCCATATCCAACTCTTGAGTATTATATACTTGTTTTTTCTTCCTAA
TGGCCACAATTATTC--ATATTTCAGGTTATGACAGACCCTGATGTGCCAGGGCCAAGTGATCCATATCTAAGGGAGCAC
CTTCACTGGTAATCTTTCTTCTGCACATTTCTTTCTGCTGGGTGGCCACTGATCAACTAGAAATTAGTATATGTTGCTAG
ATAGCAGCACATCTCCATATTGCCTTTATAT---GAAGACTGTTTTCTGAAGACTTCTAATGGGAGCCATTTTGTCATAT
ATGTCACGCTTACAGGATTGTTACTGATATACCTGGGACAACAGATGCTTCTTTTGGTAGGTCCTTTCGAACAGATTTGA
ATTGGTCTATTCCATGTTCTGCATTTTGATAAATAACCATCCAACTTTCCAACTGCAGGACGGGAAGTTATAAGCTATGA
GAGCCCAAAGCCGAACATAGGCATCCACAGGTTCATTTTTGTGCTCTTCAAGCAGAAGCGAAGGCAGACTGTAACTGTGC
CTTCCTTCAGGGATCATTTCAACACCCGCCAGTTTGCTGCGGAGAATGACCTCGGCCTCCCTGTGGCGGCTGTCTACTTC
AACTGTCAGAGAGAGACTGCTGCCAGGAGGCGCTGAAAATCCAGCTCTCGTTGTCCCAGTTATGACAAATAAA-------
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>chr5B_1_TraesCS5B01G127600
ACCAACGCTGCAAAGACGAGCATTTGAGGGTGAAGAGGCTTCCACGTGGGCAGTGCCGCATGTTTGTCTCCACTAGATAA
CTCAAAAATAATA-------------------------------------------------------------------
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------------------------------CTTAGAGAGCGGAATATCAGAAAGCCAGACCAGAAATTTCTGTAAACATC
AAATCAAGTATGCAAAAATGAATTGATAGTTTAGAAAAAGCATCATTCC-----------------TCCTTTTCCATTTT
CTCCACAAGGGCCTACTTC----CTTGCCTTGCTGCAAACAATTGCATCTAGATGTATTTTTGTGACTAAGGTATTTTTG
GTGTGCTCTCCAAAAAAAAACAGATGTAGTGCAATGTGACTGCAAATTTGCAAAATGTTCCTTTGATAACATTTTGGAAA
TACTAATGATAGATGACAAAATAACAATGTGCAAAACTAAGCAGCACAATCTGCTGA-------------TACTCTTGCA
AAAATAAAAAAATAAAAAACTGTCGAGTACAAACATAAGATAGTCAGCGT---------------CCCACTTGCATGAAG
GTGTCTAATGTTTCCAAAAGAAATAACACGGAGGTAGTGATTTAATACCTTTTCAGAGAACTCAACAGTGGTAAACCATC
AGCTTTAATTATTAATTTTTCATTTCAATCAAGACAAATATATTATTATTTTATCTAGTATATTAATATCAATACCAAAC
ATTAGAACTGAAGAGATGTACCAACAAATGAAGATAAAACAAGTGTGCACATTTGTACTTATCATCATTGATACCTCATG
ATTCTTGT-AAAAATAGTTATTGTCCCTAGAACTTAAAAGAAGACACATGAAGTATTACTTGTACAGATTCTGTGTGCAA
CTGTTCGAGAAGAAACAAGGCCTTTGGTTGGCTGTCTTGGAAAAAGTGGTTAGATCCTCTGTGTGGCCTTTTCAGTTCTT
TCCACGCATACCCAACTAAAAAAGAACACACATACTACTCATGTCTCACACTTGAAGAAGCAGCGTTCTTGCCACTATAA
ATAGATGCTCATACTCTAGCAATGCCCAATAAGCAGCTCAAGGCACATCGAAGTATATTAGCTTCGCAACAACCAGACAG
AGCATTTACCGTGCAAGACCAAAATACCTCCCTCCCCTTCCAACCATGTCTAGGTCTGTGGAACCTCTTATTGTGGGGCG
GGTGATTGGAGAAGTTCTTGATACATTTAACCCATGTGTGAAGATGGTAACGACCTATAACTCCAACAAGCTTGTCTTCA
ATGGCCATGAGCTCTACCCATCAGCGGTTGTATCTAAACCACGAGTAGAGGTCCAAGGGGGTGACTTGCGATCCTTGTTC
ACACTGGTAAGTGCATTTAATTCAATCCGGGAACTCCATATCCAACTCTTGAGTATTATATACTTGTTTTTTCTTCCTAA
TGGCCACAATTATTC--ATATTTCAGGTTATGACAGACCCTGATGTGCCAGGGCCAAGTGATCCATATCTAAGGGAGCAC
CTTCACTGGTAATCTTTCTTCTGCACATTTCTTTCTGCTGGGTGGCCACTGATCAACTAGAAATTAGTATATGTTGCTAG
ATAGCAGCACATCTCCATATTGCCTTTATAT---GAAGACTGTTTTCTGAAGACTTCTAATGGGAGCCATTTTGTCATAT
ATGTCACGCTTACAGGATTGTTACTGATATACCTGGGACAACAGATGCTTCTTTTGGTAGGTCCTTTCGAACAGATTTGA
ATTGGTCTATTCCATGTTCTGCATTTTGATAAATAACCATCCAACTTTCCAACTGCAGGACGGGAAGTTATAAGCTATGA
GAGCCCAAAGCCGAACATAGGCATCCACAGGTTCATTTTTGTGCTCTTCAAGCAGAAGCGAAGGCAGACTGTAACTGTGC
CTTCCTTCAGGGATCATTTCAACACCCGCCAGTTTGCTGCGGAGAATGACCTCGGCCTCCCTGTGGCGGCTGTCTACTTC
AACTGTCAGAGAGAGACTGCTGCCAGGAGGCGCTGAAAATCCAGCTCTCGTTGTCCCAGTTATGACAAATAAAGGCCTAT
GGAGTTCCAATCTTCTTTTCGAAGTGGATACTCGTCTGCTACATTACTTGCTCGTGAACCAATGCTTCCTTGCCACATTA
CTTCCTCATGGATCTACAAATAAATCAAATGCATTTTGAAGATTGTATTAGAATTAGATTGTTTTGTAAGCAGTAAGATT
GATAATCATGTTGACAAATGCCAGTGCAGCAAGTGGTCCATGTTTGTGGTTCCAAGTCGTGTATTAGCCAGTTATCACGA
AATCCAGGGTCAAGTAGACAATCCTAACTGGCAAAAAGGCTTTATCTACTGTATGTCGCATGCTGGTTCCATGTTATGTG
CACCTTTTCGGCTTTTCTGACAAGCAATCTCCTGTAACAGAACTTTGTTAGATATTGTTGTGTCACCTCATAGAACAATG
AAAACCCTCCTAACTGTATTGCACTGCCACTATATTCAGAGAGACATGGAGATATCCAT-GATCTAGAGGATCACCCACT
AGAAATGCTAAAAGTACGCAGTGGGAACCCCACCCCCCACCCTATTTTGCCTTCATCATGTTCTTACACCCAGCAACAAA
ACAATATCCATTTGATACACATTGCATATTAATAATTTACTCAAATTTAGCTGTAAACTGACCCTCTTTCCCCCATCCTC
TAGAAATATGGTAGTACCTTGTACACATTCATTATTTGTAGCACATTAACCAATTGTGTGCCCTTACAACATAATGGCTC
AGCTCACAGTTCGGTACCTAATCATATAACCAGGTTAGTCTTTTATCTATTTGACATTTTGCTGAGTCCAAGCCATACAA
GGTAGGAGGCATTTTAACGGCCTGGCAGTTCAGATCAAGCCTGACCTGGCACATGTCGAAGGATCCATTAGAGCAACCAG
CCAACCAGTTCATTATTATTATTTGGGCCAATTCATCCTGAACCCAATTGATAAAAAATAGGCAGGTAGACCTTGGCAAA
TGAATAAGACATGGTTTGCAACTTTCAAGCGGAG
>chr5A_1
ACCAACGCAGCAAAGACGAGCATTTGAGGGTGAAGAGGCTTCCACGTGGGCACTGCCGCATGTTTGTCTCCACTAGATAA
CTCAAAAATAATAG------------------------------------------------------------------
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-------------------------------TTAGAGAGCGGAATATCAGAAAGCCAGACCATAAATTTATGTAAACATC
AAATCAAGTATGCAAAACTGAATTGATAGTTTAG-AAAAGCATCATTCCAAAGTGTTTTGTTCCCTTCCTTTTCCATTTT
CTCCACAAGGGCCTACTTC----C----CTTGCTGCAGACAATTGCATCTAGATGTATTTTTGTGACTAAGGTATTTTTG
GTGTGCTCTCC--AAAAAAACAGATTTAGTGCAATGTGACTGCAAATTTGCGAAATGTTCCTTTGATAACATTTTGGAAA
TACTAATGATAGATGACAAAATGACAATGTGCAAAACTAAGCACCACTTGCAAAACCAAATATTCTGCTGTACTCTTGCA
AAAAAAAAAAACTGTTA-----AGTAC----AACATAAGATAGTCAGCGACATAATCTTCAGAGACCCACTTGCATGAAG
GTGTCTAATGTTTCCGAAAGAAATAACATGGAGGTAGTGATTTAATACCTTTTCAGAGAACTCAACAGTGGTAAACCATC
AGCTTTAATTATTA-TTTTTCATTTCAATCAAGACAAATATATTATTATTTTATCTAGTATATTAATACCAATACCAAAC
AGAAGAACTGAAGAGATGTACCAACAAACGAAGATAAAACAAGTGTGCATATTTGTACTTATCATCATTGATACCTCATG
ATTCTAGTAAAAAATAGTTATTATCCCTAGAACTTAAAAGAAGACACATGAAGTATTACTTGTACAGATTCTGTGTGCAA
CTGTTCGAGAAGAAACAAGGCCTTTGGTTGGCTGTCTTGGAAAAAGTGGTTAGATCCTCTGTGTGGCCTTTTCAGTTCTT
TCCACGCATACCCAACTAAAAAAGAACACACATACTACTCATGTCTCACACTTGAAGAAGCAGCGTTCTTGCCACTATAA
ATAGACACTCATACTCTAGCATTGCCCAATAAGCAGCTCAAGGCACATCGAAGTATATTAGCTTCGCAACAACCAGACAG
AGCATTTACCGTGCAAGACCAAAATACCTCCCTCCCCTTGCAACCATGTCTAGGTCTGTGGAACCTCTTATTGTGGGGCG
GGTGATTGGAGAAGTTCTTGATACATTTAACCCATGTGTGAAGATGGTAACGACCTATAACTCCAACAAGCTTGTCTTCA
ATGGCCATGAGCTCTACCCATCAGCGGTTGTATCTAAACCACGAGTAGAGGTCCAAGGGGGTGACTTGCGATCCTTGTTC
ACACTGGTAAGTGCATTTAATTCAATCCGGGAACTCCATATTCAACTCTTGAGTATTATATACTTGTTTTTTCTTCCTAA
TGGCCACAATTATTCATATATTTCAGGTTATGACAGACCCTGATGTGCCAGGGCCAAGTGATCCATATCTAAGGGAGCAC
CTTCACTGGTAATCTTTCTTCTGCACATTTCTTTCTGCTGGGTGGCCAC-GATCAACTAGAAATTAGTATATGTTGCTAG
ATAGCAGCACATCTCCGTATTGCCTTTATATGAAGAAGACTGTTTTCTGAAGACTTCTAATGGGAGCCATTTTGTCATAT
GTT--ACGCTTACAGGATTGTTACTGATATACCTGGGACAACAGATGCTTCTTTTGGTAGGTCCTTTCGAACAGATTTGA
ATTGGTCTATTCCATGTTCTGCATTTTGATAAATAACCATCCAACTTTCCAACTGCAGGACGGGAAGTCATAAGCTATGA
GAGCCCAAAACCCAACATAGGCATCCACAGGTTCATTTTTGTGCTCTTCAAGCAGAAGCGAAGGCAGACTGTAACTGTGC
CTTCCTTCAGGGATCATTTCAACACCCGTCAGTTTGCTGCGGAGAATGACCTCGGCCTCCCTGTGGCAGCTGTCTACTTC
AACTGTCAGAGGGAGACTGCTGCCAGGAGGCGCTGAAAATCCAGCTCTCGTTCTCCCAGTTATGACAAATAAAGGCCTAT
GGAGTTCCAATCTTCTTTTCGAAGTGGATACTCGTCTGCTACATTACTTGCTCGTGAACCAATGCTTCCTTGCCACATTA
CTTGCTCATGGATCTACAAATAAATCAAATGCATTTTGCAGATTGTATTAGAATTAGATTGTTTTGTAAGCAGTAAGATT
GATAATCATGTTGACAAATGCCAGTGCAGCAAGTGGTCCATGTTTGTGGTTCCAAGTCGTGCATTAGCCAGTTATCACGA
AATCCAGGGTCAAGTAGACAATCCTAACTGGCAAAAAGGCTTTATCTACTGTATGTCGCATGCTGGTTCCATGTTATGTG
CACCTTTTCGGCTTTTCTGACAAGCAATCTCCTGTAACAGAACTTTGTTAGATATTGTTGTGTCACCTCATAGAACAATG
AAAACCCTCCTAACTGTATTGCACTGCCACTATATTCAGAGAGGCATGGAGATATCCAACGATCTAGAGGATCACCCACT
AGAAATGCTAAAAGTATGCAGTGGGAACCCCACCCCCCACCCTATTTTGCCTTCATCGTGTCCTTACACCCAATGACAAA
ACAATATCCATTTGATACACATTGCATATTAATAATTTACTCAAATTTAGCTGTAAACTGACCCTCTTTTCCCCATCCTC
TAGAAATATGGTAGTACCTTGTACACATTCATTATTTGTAGTACCTTGTACAC---------------------------
------------------------------------------------ATTTGACATTTTGCTGAGTCCAAGCCATACAA
GATAGGAGGCATTTTAACGGCCTGGCAATTCAGATCAAGCCTGACCTGGCACATGTCGAAGGATCCATTAGAGCAACCAG
CCAACCAGTTCATTATTATTATTTGGGCCAATTCATCCTGAACCCAACTGATAAAAAATAGGCAGGTAGACCTTGGCAAA
TGAATAAGACATGGTTTGCAACTTTCAAGCGGAG
>chr5D_1
ACCAACGCTGCAAAGATGAGCATTTGAGGGTGAAGAGGCTTCCACGTGGGCAGTGCCGCATGTTTGTCTCCACTAGATAA
CTCAAAAATAATAGGGAAAACTTTGTTTTTGCCACTCTAGTTTTTGCCAACTTTGCTTATGCCACTCTAGAATTTGACAT
TTCACTTTTGCCACTCTTAGCTTTTGACAATATATCACTTTTGCCATTCCGTGGCAAAAGCAAAATTTTCAGAGTGGCAA
TTATGATACATTGTCAAAAGCTAAGAGTGGCAAAAGTGAAATGAAAAATTATCATTTTTGCCATGGAATGGCATTTGTGA
TGTATTGTCAAAAGCCAAGAGTGGCAAAAGTGAGACGTCAAAATCTAGAGTGGCATAAGCAAAATTGGCAAAAGCTAAAG
TGGCAAAAACAAAGTTTTCCCAAAATAATACTTAGAGAGCGGAATATCAGAAAGCCAGACCATAAATTTCTGTAAACATC
AAATCAAGTATGCAAAAATGAATTGATAGTTTAG-AAAAGCATCATTCCAAAGTGTTTTGTTCCCTTCCTTTTCCATTTT
CTCCACAAGGGCCTACTTCCTTGC----CTTGCTGCAGACAATTGCATCTAGATGTATTTTTGTGACTAAGGTATTTTTG
GTGTGCTCTCC--AAAAAAACAGATTTAGTGCAATGTGACTGCAAATTTGTGAAATGTTCCTTTGATAACATTTTGGAAA
TACTAATGATAGATGACAAAATGACAATGTGCAAAACTAAGCAGCACTATCTGCTGA-------------TACTCCTGCA
AAAATAAAAAATAAAATGGCTGAGTAC----AACATAAGATAGTCAGCGACATAATCTTCAGAGACCCACTTGCATGAAG
GTGTCTAATGTTTCCGAAAGAAATAACATGGAGATAGTGATTTAATACCTTTTCAGAGAACTCAACAGTGGTAAACCATC
AGCTTTAATTATTA-TTTTTCATTTCAATCAAGACAAATATATTATTATTTTATCTAGTATATTAATACCAATACCAAAC
AGAAGAACTGAAGAGATGTACCAACAAACGAAGATAAAACAAGTGTGCAAATTTGTACTTATCATCATTGATACCTCATG
ATTCTAGTAAAAA-TAGTTATTGT--CTAGAACTTAAAAGAAGACACATGAAGTATTACTTGTACAGATTCTGTGTGCAA
CTGTTCGAGAAGAAACAAGGCCTTTGGTTGGCTGTCTTGGAAAAAGTGGTTAGATCCTCTGTGTGGCCTTTTCAGTTCTT
TCCACGCATACCCAACTAAAAAAGAACACACATACTACTCATGTCTCACACTTGAAGAAGCAGCGTTCTTGCCACTATAA
ATAGACGCTCATACTCTAGCAATGCCCAATAAGCAGCTCAAGGCACATCGAAGTATATTAGCTTCGCAACAACCAGACAG
AGTATTTACCGTGCAAGACCAAAATACCTCCCTCCCCTTCCAACCATGTCTAGGTCGGTGGAACCTCTTATTGTGGGGCG
GGTGATTGGAGAAGTTCTTGATACATTTAACCCATGTGTGAAGATGGTAACGACCTATAACTCCAACAAGCTTGTCTTCA
ATGGCCATGAGCTCTACCCATCAGCGGTTGTATCTAAACCACGAGTAGAGGTCCAAGGGGGTGACTTGCGTTCCATGTTC
ACACTTGTAGGTGCATTTAATTCAATCCGGGAACTCCATATTCAACTCTTGAGTATTATATACTTGTGTTTTCTTCCTAA
TGGCCACAATTATTC--ATATTTCAGGTTATGACAGACCCTGATGTGCCAGGGCCAAGTGATCCATATCTAAGGGAGCAC
CTTCACTGGTAATCTTTCTTCTGCACATTTCTTTCTGCTGGGTGGCCACTGATCAACTAGAAATTAGTATATGTTGCTAG
ATAGCAGCACATCTCCGTATTGCCTTCATATGAAGAAGACTGTTTTCTGAAGACTTCTAATTGGAGCCATTTTGTCATAT
ATGTTACACTTACAGGATTGTTACTGATATACCTGGGACAACAGATGCTTCTTTTGGTAGGTCCCTTCGAACAAATTTGA
ATTGGTCTATTCCATGTTCTGCATTTTGATAAATAACCATCCAACTTTCCAACTGCAGGACGGGAAGTCATAAGCTATGA
GAGCCCAAAGCCCAACATAGGCATCCACAGGTTCATTTTTGTGCTCTTCAAGCAGAAGCGAAGGCAGACTGTAACTGTGC
CTTCCTTCAGGGATCATTTCAACACCCGTCAGTTTGCTGCGGAGAATGACCTCGGCCTCCCTGTGGCAGCTGTCTACTTC
AACTGTCAGAGAGAGACTGCTGCCAGGAGGCGCTGAAAATCCAGCTCTCGTTGTCCCAGTTATGACAAATAAAGGCCTAT
GGAGTTCCAATCTTCTTTTCGAAGTGGATACTCGTCTGCTACATTACTTGCTCGTGAACCAATGCTTCCTTGCCACATTA
CTTGCTCATGGATCTACAAATAAATCAAATGCATTTTGCAGATTGTATTAGAATTAGATTGTTTTGTAAGCAGTAAGATT
GATAATCATGTTGACAAATGCCAGTGCAGCAAGTGGTCCATGTTTGTGGTTCCAAGTCGTGTATTAGCCAGTTATCACGA
AATCCAGGGTCAAGTAGACAATCCTAACTGGCAAAAAGGCTTTATCTACTGTATGTCGCATGCTGGTTCCAAGTTATGTG
CACCTTTTCGGCTTTTCTGACAAGCAATCTCCTGTAACAGAACTTTGTTAGATATTGTTGCGTCACCTCATAGAACAATG
AAAACCCTCCTAACTGTATTGCATTGCCACTATATTCAGAGAGGCATGGAGATATCCAACGATCTAGAGGATCACCCACT
AGAAATGCCAAAAGTACG---------------CCCCCACCCTATTTTGCCTTCATCATGTCCTTACACTCAGCGACAAA
ACAATATCCATTTGATACACATTGCATATTAATAATTTACTCAAATTTAGCTATAAACTGACCCTCTTTCCCCG-TCCTC
TAGGAATA------------------------------------------------------------------------
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>SNPs
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--------------------------------------------------------------S-----------------
----------------------------------S---------------------------------------------
------------------------SSSS---------S------------------------------------------
-----------SS------------S-------------------------S----------------------------
----------------------S------------------------S--------------------------------
-----------S-----SS---SSS-SSSSS------------------S------------------------------
---------------S------------S---------------------------------------------------
--------------S-----------------------------------------------------S-----------
-SS-------------------------S--------------------S------------------------------
-----S--------------------------------------------------------------------------
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-----S--------------------------------------------------------------------------
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-----------------------------------------S--------------------------------------
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----------------S---------------------------------------------------------------
----S---------------------------------------------------------------------------
--------------------------------------------------------------------S-----------
------------S-------------------------------------------------------------------
----------------------------S--------------------------------------S------------
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---S----------------------------------S-----------------------------------------
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-------------------------------------------S--------------S---------------------
-------------------------------------------------------------S------------S-----
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-----------------------------------------S--S--SSS--SSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS--------------------------------
-S-------------------------S----------------------------------------------------
-----------------------------------------------S--------------------------------
----------------------------------
>forward_585
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-----TCCACAAGGGCCTACTTCCT-------------------------------------------------------
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>reverse_2269
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----------------------------CCAGTTTGCTGCGGAGAATG--------------------------------
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>forward_2149
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-------------------------------------------------CAACTGCAGGACGGGAAGTT-----------
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>reverse_3117
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----------------------------------------------------------------------------GCTC
AGCTCACAGTTCGGTA----------------------------------------------------------------
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----------------------------------
