>input_sequence_75013
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------ATGGAGGGAAAGAAAATAGACATCACTGGACTACTTTGGCAGATTAGGATTGAAGCTACTGAATATATGACTTA
CTTCAGTCGTGAGAAGAAACCAGCTGAGCGAAAATCTGAAGTTTGGACCAAGCCGACTGACGGTGTGCTAAAGATTAATA
CTGATGGCAGCTTCTGTGCGGCGTCATCATCAGGAGGGTGGGGCTATGTCATTCGAGATCATGACGGTGACGTTGTGGTA
GCGGCTGCAGGAAGGATATCGCATGCACAGGACGCCTTGCAAGGTGAAGCTGAAGCATGCATATTTGCTCTATACAAGGC
GCAGGAGTTAGGCATCACCAGGGTTGTGGTGGAGACGGATGCAACGTTGCTGGTCCATGCAATCAAGTCGTCGAACTTTG
ATCTTTCTTCTAATGGGGTCTTGTTCAGGGAAATAAAGACTTTTGCTAGTCTGAACTTTAGTTTTTTTTTTCATATTATT
CATTGTCCGAGGGCTTGTAATAAGGTTGCAAACGCTCTTGCGCTGTATGG-----------AGCTTGTACCCCAAGCCGT
ATGGCCGGGTCTTGCCCCTACCTTTGCCCGGTCTTTTGTTGCTAG-----------------------------------
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>chr2D_1_TraesCS2D01G039200
GGTTGTGTGAACAGATGACAGCTATGATATGCAGGTTTTTTTGGGCACAACAAGATAATGATGAGAAGATACATTGGTTG
TCTGCTGAGAAGTTGACTCTTTCCAAAAGAGAAGGTGGTTTGGGATACAAGTATCTCCATGTGTTCAATCTGGCCATGCT
CGCAAAACAAGCGTGGAGATTGTTAGAACACCCTGATTCACTTTGTGCTCGAGTTCTCAAAGCGAAGTATTTCCCTGAAA
CTGGCATACTGCATGCTACACCCAAAAAGGGAATGCCGTATGCATGGCGCAGTATCTTACAGGGAATTGAAGTGGCTAAG
AAGGGAGTCATCAAGCGTGTCGGTGACGGCTCGATAGTGAAGATCTGGGAGGGCCCGTGGCTTCCTAGAGACTGGGACAG
GAGACGGATGACACACCGCCGGAACGCTGTCGTCTCAACTGCTGCTGAGTTGATGGACTCATTCTCTGTGGCGTGGGACG
AACAGCTAGTGCGGTCGATATTCTGGGCACCAGATGCGGACTTGATCCTAGCTTTGCCCATTAAAGAAGATATGGAAGAT
GCTTGGGCATGGCATCCTGACCATCGTGGTTGTTCCTCTGTGAAGTCAGCGTACAAATTATGCAGACAACTCCAGATGGT
GGACTCGGGTGAGGTTGGTCAGGCAAATAGGGACAG---CAACAACAGTTTCAGATGGAGTTCCATATGGCACGCGCCGT
GCCCAAATAAAGTGCAACAATTCTTATGGCGTATGGCATACAACAGCCTTCCCCTCTGTGCAAATCTGAAGAGGAAAGGA
GTAGACATTGACACACTTTGTGCAGTCTGCAAAAGAAGAGATGAAGATGGTAGCCATATGTTGTTTCAGTGTAAACAGGT
CAAGCAGTTGTGGAGGGAATTAGGACTAGAGGAGGTACGTACTAAGTGCATGGCAATGCATGATCCAAAAGAAGTAATAC
AGG-------------------------------------------ACTAGCATGGACGTGGTGGAATGCAAGAAATAAA
CTGAGGATGGAGGGAAAGAAAATAGACATCACTGGACTACTTTGGCAGATTAGGATTGAAGCTACTGAATATATGACTTA
CTTCAGTCGTGAGAAGAAACCAGCTGAGCGAAAATCTGAAGTTTGGACCAAGCCGACTGACGGTGTGCTAAAGATTAATA
CTGATGGCAGCTTCTGTGCGGCGTCATCATCAGGAGGGTGGGGCTATGTCATTCGAGATCATGACGGTGACGTTGTGGTA
GCGGCTGCAGGAAGGATATCGCATGCACAGGACGCCTTGCAAGGTGAAGCTGAAGCATGCATATTTGCTCTATACAAGGC
GCAGGAGTTAGGCATCACCAGGGTTGTGGTGGAGACGGATGCAACGTTGCTGGTCCATGCAATCAAGTCGTCGAACTTTG
ATCTTTCTTCTAATGGGGTCTTGTTCAGGGAAATAAAGACTTTTGCTAGTCTGAACTTTAGTTTTTTTTTTCATATTATT
CATTGTCCGAGGGCTTGTAATAAGGTTGCAAACGCTCTTGCGCTGTATGG-----------AGCTTGTACCCCAAGCCGT
ATGGCCGGGTCTTGCCCCTACCTTTGCCCGGTCTTTTGTTGCTAGCGACGTCGCTAGACACGTTGATTAATGGAATGAAA
TGTTCCAAGCTAAAAAAAAAAAGGTGTGGTCAGATCTCACTCGACTAAGACTTAACAAGTACTTCCTCCGTCCGAAAATA
CTGGTTGAAGAAATGATTGTATCTAGATTTATTTTAATTC----TAGACACATTCATTTCTATCGATTTCTACAACAAGT
AATTTCGGATGAAAAGAGAAAG-AAAAATTTTAAAGAGAAAAATTGCACGGAGCTTAACGTATAGGATCTCATGAATATA
GCATCCAAGTCTCAGTCAACTGAGAA------------ATATAAAAACGGATTCAACCAAAACACACAAGAGCAAGCTGA
AATTGCCCGATAGATCATAGGTGATAGGTCTACGAAATTAATCCACACATTAAGTGGATGCATGCTGATATATGGTCACA
GCTTAGGACGTTCAGTGGCTAGAAGAAGTTGGCATACATCAGCGACGGCGTGCTGGAACTTGTGGTGAGTCGCCGCCTCC
AAGGAGATGAGCACGCGCGCGCTGCCGTCGGCGGAGGCGGCCAACAGGTACACCCACCCGCCGCGCACAGCCTCCGCCCG
GGTCATCGCGCGCGGCTGCCCCCACCCGAAGTCCGCGTCCTGCACGGGGATGCGGAACCAGCTGTTCATCCGCAGCTCCG
TCTCCGGCAGGTTCCCCCTGTCCTCCGCCCGCCGCCGCACGCCCTGCTTCGCCGTTTC---CTCGAAGTAGTCCACCGCC
GACCTGAGCAGCTCGTCGTCGACCCGGTCCGCGGCGGCTTTGACCCGGCCGGCGACGGAGGCCAGCGTCTGCGACACCAC
GTCCTTCACCGCGGCGGTGGCGAACACGTTGACGACCCCGTTGCCGAAGTACCGGTCCTGGAGCGGCGGCGTCAGGCGGC
GCCTGATGTCCACCGGGAAGTTGATGCGCGTGGTGGAGTCCGGGTGCAGACCCGGCCGGGCGACGCAGACGCACCGCCAC
ACGAGGGCCGCCACGGCGCAGAACG
>chr2A_1
GGTTGTGTGAACAGATGGCAGCTACGATATGCCG-ATTTTTTGGGCAAAACAAGATAATGATCAGAAGATACATTGTTTG
TCCGCTGAGAAGTTGACTCTTTCCAAAAAAGAAGGTGGTTTGGGATACAAGGATCTCCATGTGTTTAATTTGGCCATGCT
CACTAAACAAGCGTGGAGATTGTTAGAACACCCTGATTCACTTTGTGCTCGAGTTCTCAAAGCGAAGTATTTCCGTGAAA
CCGACATACTGCATGCTACACCCAAAAGGGAATGTT-GTATGTGTGGCATAGTATCTTACAGGGAATTGAAGTGGTTAAG
AAGGGAGTCATCAAGCGTGTCGGTGACGGCTCGACAGTGAAGATCTGGGAGGACTCGTGGCTTCCTAGAGACTGGGACGT
GAGACCGATGACACATCGCCGGAACGCTGTCGTCTCAACTGCTGCTGAGCTGATGGACGCATTCTCTGTGGCATGGGACT
AACAGCTAGTGCGGTCAATATTCTGGGCACCAGATGCGGACTTGATCCTAGCTTTGCCCATTAAAGAAGATATGGAAGAT
GCCTGGGCACGGCATCTTGACCATCGTGGTTGTTTCTTTGTGAAGTCGGCGTACAAGTTATGCAGACAATTTCAGATGGT
GGACTCGGGTGAGGTTGGTCAAGCAAATGGGGACAACAACAACAACAGTTTCAGATGGAGTTCCATATGGCACGCGCCGT
GCCCAAATAAAGTGCAACAATTCCTATGGCGTATGGCACACAACAGCCTTCCCCTATGTGCCAATCTGAAGAGGAAAGGA
GTAGACATTGACACACTTTGTCCAGTCTGCAAAAGAAGAGATGAAGATGGTAGCCATCTGTTGTTTCAGTGTAAACAGGT
CAAGCAATTGTGGAGGGAATTAGGACTAGACGAGGTACGTACTAAGTGCATGGCAATGCATGATCCAAAAGAAGTAATAC
ATGAGCTGTTGGGGGGTGATCTGCAACGGAAAACAATCATCATTGCACTAGCATGGACGTGGTGGAATGCAAGAAAAAAA
CTGTGGATGGAGGGAAAGAAAATAGACATCACTGGACTACTTTGGCAGATTAGGATTGAAGCTACTGAATATATGACTTA
CTTCAGTCATGAGAAGAAACCAGTTGAGCGGGAATCTGAAGTTTGGACCAAGCCGACTGACGGTGTGCTAAAGATTAATA
CTGATGGCAGCTTTTGTGCGGCGTCATCATTAGGAGGGTGGGGCTATGTCATTCAAGATCATGACAGTGATGTTGTGGTA
GCGGCTGCAGGAAGGATATCGCATGCACATGATGCCTTGCAAACTGAAGCTGAAGCATGCATATTTACTCTATACAAGGC
GCATGAGTTAGGCATCACCAGGGTTGTGGTGGAGACGGATGCAACGTTGCTGGTCCATGCAATCAAGTTGTCGAACTTTG
ATCGTTCTTCTATTGGGGTATTGTTCAGGGAGATAAAGACTTTTGCTAGTTTGAACTTCAG-T---TTTTTCATATTGTT
CATTGTCCGAGGGCTTGTAATAAGGTTGCAGACGCTCTTGCGCTGTATGGGTCGAAGATGGAGCTTGTACCCCAAGCCGT
ATGGCCGGTTCTTGCCCCTACCTTTGTCCGGTCTTTTATTGCTAGCGACGTCGCTAGACATGTTGATTAATGGAATGAAA
TGTTCCAAGCTCAAAAAAACAA----------------------------------------------------------
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>chr4B_3
--TTTTGTGAACAGATGACAGCTATGATATGCAG-TTTTTTTGGGCACAACAAGATAATGATTAGAAGATACATTGGTTG
TCTTCTGAGAAATTAACTCTTTCCAAAAAAGAAGGTGGTTTGGGATACAAGCATCTCCATGTGTTCAATCTGGCCATGCT
CGCTAAACAAGCGTGGAGATTGTTAGAACACCCTGCTTCACTTTGTGCTCAAGTTCTCAAAGCGAAATATTTCCCTGAAA
CTGACATACTGCATGCTACACCCAAAAGGGTATGT-CGTATGTGTGGCATAGTATCTTACAGGGAATTGAAGTGGTTAAG
AAGGGAGTCATCAAGCGTGTCGGTGACGGCTCAACAGTGATGATCTGGGAGGACCCGTGGCTTCCTAGAAACTAGGACAG
GAGACCGATGACACATCACGGGAACGCTGTCGTCTCAACTGCT-CTGAGCTGATGGACGCATTCTCTGTGGCATGGGACG
AACAGCTAGTGCGGTCGATATTCTAGGCACCAGATGCGAACTTGATCCTATCTTTGCCCATTAAAGAAGATGTGGAAGAT
GCTTGGGCATGGCATCCTGACCATCGTGGTTGTTTCTCTGTGAAGTCAGCGTACAAATTATGCAGACAACTCCAGATGGT
GGACTCAGGTGAGGTTGGTCAGGCAAATGGGGAGAG---CAATAACAGTTTCAGATGGAGTTCCATATGGCACGCGTCGT
GCCCAAATAAAGTGCAACAATTCCTATGGCGTATGGCACACAACAACCTTCCCCTCTATGCTAATCTGAAGAGGAAAGGA
GTAGACGTTGACACACTTTGTCCAGTCTGCAAAAGAAGAGATGAAGATGGTAGCCTTCTGTTGTTTCAATGTAAACAAGT
CAAGCCGTTATGGAGGGAATTAGGACTAGAGGAGGTACGTACTAAGTGGATGGCAATGCATGATCCAAAAGAAGTAATAC
AGGAGCTGTTGGGGGGTGATCTGCAACGGAAAACAATCATCATTGCACTAGCATGGACGTGGTGGAATGCAAGAAATAAA
CTGAGGATGGAGGGAAAGAAAATAGACATCACTGGACTACTTTGGCAGATTAAGATTGAAGCTATTGAATATATGACTTT
CTTCAGTCGTGAGAAGAAACCAGCTGAGCGGAAATCTGACGT--------------------------------------
------------------------------------------GCTATGTCATTCGAGATCATGACGGTGACATTGTGTTA
GCGGCTGCAGGAAGGATATCGCATGCACATGACGCCTTGCAAACTGAAGCTGAAGCTTGCATATTCGCTCTATACAAGGG
ACAGGAGTTAGGCATCACCAGGGATGTGGTGGAGACGGACACAATGTTGCTGGTCCATGCAATCAAGTCGTTGAACTTTG
ATCTTTCTTCTAATGGGGTCTTTTTCAGGGAAATAAAGACTTTTGCTAGTCTGAACTTTAGTT---TTTTTCATATTGTT
CATTGTCCGAGGGTTTGTAATAAGGTTGCAGACGCTCTTGCGCTGTATGGGTCGAAGATGGATCTTGTAGCCCAAGCCGT
ATGGCTGGGTCTTGCCTCTACCTTTGTCCGGTCTTTTGTTGCTAGCGACGTTGCTAGACACATTGATTAATGGACTGAAA
TGTTCGAAGTTCAAAAAAA-------------------------------------------------------------
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>chr2A_1642
AAAAGA--------------------------------------------------------------------------
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-----------------------GTGTGGCTAGATCTGAGTCAAGT--GACATAACAAGTACTCCCTTTGTCCGGAAATA
CTTGTCGAAGAAATGGTTGTATCTAGATGTATTTTAGTTATGTATAGATACATCCATTTCTATCCATCTTCG--ACAAGT
AATTCCAGACGA--AGAGAAAGAAAAAAGTTTGAAGAGAAAAATTGCACGGATCTCGAGGTAGC--ATCTCCCGAATATA
ACATCCAAATCTCAGTCGACTGAGAAGCAAAGACTTGTATATAAAAACAGATTCAACCAAAGCGCACAAAAGCAAGCTGA
AATTGCCCGATAGATC-------ATAGGTCTACGAAATTAATCCACACATTAAGTGGATGCATTCTGATATATGGTCACA
GCTTAGGGCGTTCAGTGGCTAGAAGAAGTTGGCATACATCAGCGACGGCGTGCTGGAACTTGTGGTGAGTCGCCGCCTCC
AAGGAGATGAGCACGCGCGCGCTGCCGTCGGCGGAGGCGGCGAACAGGTACACCCACCCGGCGCGCACAGCCTCCGCCCG
GCTCATCGCGCGCGGCTGCCCCCACCCGAAGTCCACGTCGTGCACCGGGATGCGGAACCAGCTGTTCATCCGCAGCTCCG
TCTCCGGCAGGTTCCCCCTGTCCTCCGCCCGCCGCCGCACGCCCTGCTTCGCCGTCTC---CTCGAAGTAGTCCACCGCC
GACCTGAGCAGCTCGTCGTCGACCCGGCCCGCGGCGGCTTTGACCCGGCCGGCGACGGAGGCCAGCGTCTGCGACACCAC
GTCCTTCACCGCGGCCGTGGCGAACACGTTGACGACCCCGTTGCCGAAGTAGCCGTCCGGGAGCGGCGGCGTCAGGCGGC
GCCTGATGTCCACCGGGAAGTTGATGCGCGTGGTGGAGTCCGGGTGCAGGCCTGGCCGGGCTACGCAGACGCACCGCCAC
ACGAGGGCCGTCACGGCGCAGAACG
>chr2A_1672
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------------------------------------------------GACATAACAAGTACTCC-TTTGTCCGAAAATA
CTTGTCGGAGAAATGATTGTATTTAGACGTATTTTAATTATAAATAGATATATCCATTTCTATCTATCTCCG--ACAAGT
AATTTCGAACGAAGAGAGAAAGGAAAAAGTTCAAAGAGAAAAAATGCACAGATCTCGAGGTAGC--ATCTGACGAATATA
ACATCCAAATCTCAGTCGACTGAGAAGCAAAGACTTGTATATAAAAACGGATTCAACCGAAACGCACAAAAGCAAGCTGA
AATTGCCCGATAGATC-------ATACGTCTACGAAATTAATCCACACATTAAGCGGATGCAT------ATATTGTCACA
GCTTAGGACGTTCATTGGC---AAGAAGTTGGCATACATCGGCGACGGCCTGCTGGAACTTGTGGTGAGTCGCCGCCTCC
AAGGAGATGAGCACGCGGGCGCTGCCGTCGGCGCGGGCGGCCAACAGGTACACCCACCCGCCGCGCACAGCCTCCGCCCG
GGTCATCGCGCGCGGCTGCCCCCACCCGAAGTCCGCGTCCTGCACGGGGATGCGGAACCAGCTGTTCATCCGCAGCTCCG
TCTCCGGCAGGTTCCCCCTGTCCTCCGCCCGCCGCCGCACGCCCTGCTTCGCCGCCTC---CTCGAAGTAGTCCACCGCC
GACCTCAGCAGCTCGTCGTCGACCCGGTCCGCGGCGGCTTTGACCCGGCCGGCGACGGAGGCCAGCGTCTGCGACACCAC
GTCCTTCACCGCGGCGGTGGCGAACACGTTGACCACCCCGTTGCCGAAGTAGCCGTCCGGGAGCGGCGGCGTCAGGCGGC
GCCTGATGTCCACCGGGAAGTTGATGCGCGTGGTGGAGTCCGGTTGCAGACCCGGCCAGGCGACGCAGACGCACCGCCAC
ACCAGGGCCGTCACGGCGCAGAACG
>chr6A_2054
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-----------------------------------------------GCGCGCTCGAACTTCTTGAGAGTTGCCGTCTCC
AAAGAGATTAGCACGCGCGCGCTGCCATCGCCGCAGCCAGCCATCACGTACACCCAGCCGCCGCGCACAGTCTCCGCCCG
CGTCATCAGCCGCGGCTTCCCCCACCCGAAGTCCGCGTCATATATGGGCAGATGGAACCAACTGTTCACCCGCAGCTCCG
TCTCCGGCAGGTTTCCCCTGTCCTCCGGCCGGCCGCC---------CTTCGCCGCCTCCATCTCGAAGTAGTCCACAGCC
GACCTCAGCAGCTCGTTGTCGAGCTGCTCCGTCGTGGCCTTCACCCTGCTCGCGACGGAGGCCAGCGTCTCCGACACGAC
GTCCTTCACCGCGGCGGTGGCGAACACGTTCACGACCCCGTTGCCGAAGTAGCGACCCGGGAGCCGCGGCTTAAGGCGAT
GCCTGATGTCCACCGGGAAGTTCATGCGCGTTGTGGCATCCGGGTCCAGCTGG---CGGGCGATGCATACGCACTGCCAC
ACGAGGGCGCTCACGGCGCAGAA--
>chr6D_2058
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---------------------------------------------------GCTCGAACCTCTTGAGAGTCGCCGCCTCC
AAGGAGATAAGTACGCGCGCGCTGCCATCGCCGCAGCCAGCCATCACGTACACCCAGCCGCCGCGCGCAGTCTCCGCCCG
CGTCATCACCCGCGGCTTCCCCCACCCGAAGTTCGCGTCATATATGGGCAGATGGAACCAACTGTTCATCCGCAGCTCCG
TCTCCGGCAGGTTTCCCCTGTCCTCCGGCCGCCCGCC---------CTTCGCCGCCTCCGTCTCGAAGTAGTCCACAGCC
GACCTCAGTAGCTCGTCGTCGAGCTGCTCCGTCGTGGCCTTCACCCTGCTCGCGACGGAGGCCAGCGTCTCCGATACGAC
GTCCTTCACCGCGGCGGTGGCGAACACGTTCACGACCCCGTTGCCGAAGTAGCGACCAGGGAGGCGCGGCTTCAGGCGAT
GCCTGATGTCCACCGGGAAGTTCATGCGCGTTGTGGCATCCGGGTCCAGCTGG---CGGGCGATGCATACGCACTGCCAC
ACGAGGGCGCTCACGGCGCAGAA--
>chr6B_2058
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---------------------------------------------------GCTGTAACCTCTTGAGAGTCGCCGCCTCC
AAAGAGATTAGTACGCGTGCGCTGCCATCGCCGCAGCCAGCCATCACGTACACCCAGCCGCCGCGCACAGTCTCCGCCCG
CGTCATCACCCGCGGCTTCCCCCACCCGAAGTTCGCGTCATATATGGGCAGATGGAACCAACTGTTCATCCGCAGCTCCG
TCTCCGGCAGGTTTCCTCTCTCCTCCGGTCGCCCGCC---------CTTCGCCGCCTCCATCTCGAAGTAGTCCACAGCC
GACCTCAGCAGCTCGTCGTCGAGCTGCTCCGTCGTGGCCTTCACCCTGCTCGCGACGGAGGCTAGTGTCTCCGACACGAC
GTCCTTCACCGCGGTGGTGGCGAACACGTTCACGACCCCGTTGCTGAAGTAGCTACCCGGGAGCCGCGGCTTAACGTGAT
GCCTGATGTCTACCGGGAAGTTCATGCGCGTTGTGGCGTCCGGGTCCAGCTGG---CGGGCAATGCATACGCACTGCCAC
AAGAGGGCGCTCACGGCGCAGAA--
>SNPs
----------------------------------S---------------------------S-----------------
----------------------------S----------------------S----------------------------
---S----------------------------------------------------------------------------
---S-----------------------S--S-SSSS------SS----SS-------------------------S----
----------------------------------S-----------------S---------------------------
-----S---------S---------------------------------S--------S-------------S-------
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----------------------------------S---------------------------------------------
----------------------------S---------------------------------------------------
-----------------------S--------------S----------------------S------------------
---------------------S-----------------------------------S----------------------
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------------------------------S-------------------------------------------------
-------------S----------------S-------------------------------------------------
-----------------------------S------------SS------------------------------------
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---------------------------------------------------------------SSS-----------S--
------------------------------S-------------------------------------------------
--------------------------S-----------------------------------------------------
-----------S-------S--S------SS------S-S--S-S-SS---S-----------S---SS-----------
--S--S----------------------S----------S--------S----S----------S--S--SSSS------
---------S---S--------------S-----------------------S--SS-S---SSSS------S-------
S-------S--------S---------------------------------------------S-----S----------
----------------SSSSSSS----------------------------------------S----------------
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-------------------------------------------------------S------------------------
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---------------------------------------------------S------S---------------------
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----------S--------------
>forward_473
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-----------------------------------------------------TGGACTCATTCTCTGTGGCG-------
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>reverse_1990
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---------------------------------------------------------------------GAGCAAGCTGA
AATTGCCCG-----------------------------------------------------------------------
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