>input_sequence_75762
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---------------------------------------------------------------CCCGTTGCCCAAGATCG
GAGGCGCCATGGCGTCCTCACGCAGAGCCCACCGGCTCCTCTTCCTCCCC-CTCGCGCTGCTGCACCTCCTCTCCTCCTG
CCCGCACACCGCCAGCGGCGCGCCCAACACGGCACCGCTCTCCGTGCTCTGCAACGGCGCGGTGTACGGCGCCGGCGACC
CCTTCGCCGAGAGCCTCGCCTACGTGCTGGCCGACCTGCTGGCCGCCACGCCGCAGTCCCGCGCCCGCGACGCCTACAGC
ATATCCCCGTACCCGAACGCGTTCGCCTACGGCCACGCCGCGTGCCGCGCCGGCCTGTCGGGCGCGGACTGCGCGAGCTG
CCTCGGCTCCGCCGTCAGCCAGATGAACGCCACCTGCGGCCACGCCGTCGGCGCGAGGGCCGTGCTCGTGGATTGCAGCG
TGCGGTACGAGCAGTACGCCTTCGTGGATTAGCTACCGCCGGGACGGCCG----GCGTCCTCTCCCTGTGTTGGCACGTC
CGCGTAGGTGTGTGT-------GGTTTGGCTGG------TTTGGGCTGCCGATTCGGTTTAAGATTCTACGGTGAAACAT
GTGGTG--------------------------------------------------------------------------
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-----------------------------------
>chr2A_1_TraesCS2A01G134700
TCTTTATTTTGTTTCCACAAGAAATGAGCTATTTATGGACAAAATCAAGGA----CATGAGAGTAAAGGAGGAGATAGAA
AAAAATCAAGTGGAGGCGCAACCAGAAGAAATAGAGTAAAAGACGGTGTATCATGCGACTGCGACCACTAGCGTGAGCCG
TATGGCGTGGAAACCGATGCCTCTCGTCCACCCAAACAATTTTTATAAAGTGGTCGAGGCCGAAATGTTAACAGAACAAC
CATGAGAGGAGCCACATAACCGAGTCATCTTCATCCCATCTTCATCAACCCTAACCGCCGCCATTTTCTATCTCCATAGC
CCCCATCTCCATCTTCACCATAGTTCACCCTCCTCCAGTCATACTTGTAATCGTGTATAACACACGGCATCCATTGTAAG
GCATATTATCAATCAATATACCTTCATGATATCCATGTGTGAGTAGTTTGATAAGGTATGGGTTGTGGCAAGAGCCTTGC
AACCAATAGATGTATT-GCTTTTTTTTCTTTGAATTTATTGGTGAAAGTTTAAATTTTATTTGGTTTGAAAGCTATGAGA
TTTTTATTCGATTGTAAACTATTTATTATTGCGATGTAAAATTTATGTGATTTAAACTTGTGGCAATGTTTAGATTTGTA
TGCAAAGATAATTTTCAAATATGGCATACCGGTCGCGGACAAAATGCGTCGGCCAGTTGAGCGAACTGGTTAGCAAAACA
CGGATGAAGCGAGACTCCGCCTTACAGCCCGAT--------ACAAAAAACAGATTAAATCCGGGTCCATTTGAGCGTTGG
AGTTGCCCTAATATG------TAGGCACATGGCACATCGCATGCATCGATCACATCGTCATGCAAGCAGACAAGCATACA
AACAAGCGGACGAGCAGTCT-CGGTGAAAACGACCATCGGCCGGCCGGCCTGAGCCTGTCCGTCCTATCTT---CCCACT
CATAGATGCCGTTGCTCCCAAAGCTCACAACGCCACCAACAACCACACACCACCCCTACTACACCCGTTGCCCAAGATCG
GAGGCGCCATGGCGTCCTCACGCAGAGCCCACCGGCTCCTCTTCCTCCCC-CTCGCGCTGCTGCACCTCCTCTCCTCCTG
CCCGCACACCGCCAGCGGCGCGCCCAACACGGCACCGCTCTCCGTGCTCTGCAACGGCGCGGTGTACGGCGCCGGCGACC
CCTTCGCCGAGAGCCTCGCCTACGTGCTGGCCGACCTGCTGGCCGCCACGCCGCAGTCCCGCGCCCGCGACGCCTACAGC
ATATCCCCGTACCCGAACGCGTTCGCCTACGGCCACGCCGCGTGCCGCGCCGGCCTGTCGGGCGCGGACTGCGCGAGCTG
CCTCGGCTCCGCCGTCAGCCAGATGAACGCCACCTGCGGCCACGCCGTCGGCGCGAGGGCCGTGCTCGTGGATTGCAGCG
TGCGGTACGAGCAGTACGCCTTCGTGGATTAGCTACCGCCGGGACGGCCG----GCGTCCTCTCCCTGTGTTGGCACGTC
CGCGTAGGTGTGTGT-------GGTTTGGCTGG------TTTGGGCTGCCGATTCGGTTTAAGATTCTACGGTGAAACAT
GTGGTGTTCCGTTTGGTTCTGCCCACATGTGTTCTAGTGCTTGTGTCCCAATCTGTATTGTGTTTTTTTCTTG-TCAAAA
AAATA---T-TATCTCCTCCCAGCCTCTAAATATGTAAGGCAAGGCCCAAACAATTTTATGAGCCG--------------
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----------------GCTACACTAAAGGACCAACAAAGATGGGATGCAAAACAGTACGACTAAGTCACCATCCTCCCCT
AACAAATGTTTGTTTTCAG--AAAGAACTTAAGATCTATTCATCAAACAACATGGTAGTACAAGAACACTAAAAGCAACA
TAAATTACATTTAGGTTCATAGACCACCTAGTGACGAGCCGAAGGCATGCCGTCATCATTGCCCCTCCCTCACCAAAGCC
AGACAAACCTTACTGTAGTAGATAGTCAGGAATTTGTCATGCTAAGACCCCAAAGGACCAATGAAGCAGAATAGCAACCA
TCGCTGATAAAGAGAAGCATAGATCAGAAGGATCCAACATGTAGACACACAAATGTAGACGAACAAATACCGAATCCATA
TAGATCCACTGAAGAAAAACATCGATCAAATCTCGCAAGATCCGCCGAAGACACACGTCCACACCCATCGACGACACTAG
ACGCACCACCAGAACAGGAACTAGGCAGCGAGAACCTTGTTTCATCTTAAGGGAGCCGACATCGCCTCCCCTTCCTGAGC
AGGACATAAACCCTAAACAAACTCAAAAGAACACGTAAATACAGAATAGGAGCCCTCCCACAGGCAAGGACAGGGATCCA
TCGCGCCTTCATGCCCTTAGGGCCACAAGAGGCAAGG-------------------------------------------
---------------------------------------------------------------------ATGTTTTAAGT
GCCTCCCTAGCTGAACTCATAAAATTTAACTCCTCAAACACATCCTCAAACTTTAACACATCAAATTTGAAGAGTTAAAA
GAATGCAAACCTAACCGAACTCCCAAACTTAACTCCTCAAACGAACCAGACCTCATATGAAAGCCCCTCTCCCTCTTCTT
CTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCT
>chr2D_1
TCTTTATTTTGTTTACACAGGAAATGGGCTATTTATGGACGAAATCAAGTCATGCCATGAGAGTAAAGCAGGAGAGAGAA
G-AAATCAAGTGGAGGCGCAACCAGAAGAAATAGAGTAAAAGACGGTGTATCATGCGACCGCGGCCACTCGCATGAGCCG
TATGGTGTGGAAACTGATGCCTCTCGTGCACCTGAACAAATTTTATAAAAGGGTCGAGGCCGAAACATTAACAGAACAAC
CATGAGAGGAGCCACAGAACAGAGTCATT-----------TTCATCAACCCTAACCGCCGTCATTTTCTATCTCCATAGC
CACCATCTCCATCTTCACCATAGTTCATCCTCCTCTAGTCATACTTGTAATTGTGTAGAACACACGACATCCATTGTAAG
ACATGTTATCAATCAATCTATCTTTATGATATCCACGTGTGAGTAGTTTGGTAAGGTATGAATTGTGGCAAGAGCCTTGC
AACCAATAGATGTATT-GCG-CTTTTTCTTTGAATGTATTTGTGAAAATTCAAAATTTATTTGGTTTGAAAGCTATGTGA
TTTTTATTCGATTGTAAACTATTTATTATTGCGATGTAAAATTTATGTGATTTAAACTTTGGGCAATGTTAAGATTTGTA
TGCAAAAATTATGTATAAATATGACATACCGACAACGGTCAAAATGCGTCGGCGAGTTGAGCGAACTGGTTATCAAAACG
CGGACGGAGCCGAACTTCATCTTACAGACCAATCCAAACAGACAAAAAAATGATCAAATCCAAATCCGTTTGAGCGTTGG
AGTTGCCCTAATACG------TAGGCACATGGC---TCACATGCGTCGCTCACATCGTCGTGCAAGCAGACAAGCATACA
GACAAGCGGACGAGCAGTCT-CCGTGAAAACGACCATCGGCCGGCCGGCCTCAGCCTGTCCGTCCTATCTT---CCCACT
CACAGATACCGTTGTTCCCAAAGCTCACAGCGCCACCAACAACCACACACCG---CTACTACACCCGTTGCCCAAGATCG
GAGGCTCCATGGCGCCCTCACGCAGAGCGGGCCGGCTCCTCTTCCTCCCC-CTCGCGCTGGTGCACCTCCTCTCCTCCTG
CCCGCACACCACCAGCGGCGCGCCCAACACGGCACCGCTCTCCGTGCTCTGCAACGGCGCGGTGTACGGCGCCGGGGACC
CCTTCGCGGAGAGCCTCGCCTACGTGCTGGCCGACCTGCTGGCCGCCACGCCGCAGTCCCGCGCCCGCGACGCGTACACC
ATCTCCCCGTACCCGAACGCGTTCGCCTACGGCCACGCCGCGTGCCGCGCCGGTCTGACGGGCGTGGACTGCGCGAGCTG
CCTCGGCTCCGCCGTCAGCCAGATGAACGCCACCTGTGGCCACGCCGTCGGTGCGAGGGCCGTGCTCGTGGATTGCAGCG
TACGGTACGAGCAGTACGCCTTCGTGGCTTAGCTACCGCCCGGCCGGCCGGCCGGCGTCCTCTCCCTGTGTTGGCACGTC
CGCGTAGGTGTGTGTAGCCTATGGTTTGGCTGATGGAAATTTGGGCTGCCGATTCAGTTTAAGATTCTACGGTGAAACAT
GTGTTGTTCCGTTTTGCTCTGCACACATGTGTTCTAGTGTTTGTATCCCAATTTGTATTGTGTTGTTGTTCTTCTCAAAA
AAAAAAAATGTATCTCCTCCCAGCCTCTAAACATGTAAGGCAAGGCCCAAAACATTTTATGAGCAG--------------
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----------------GGTACACTAAATGACCAATAAAGATGGGATGTAAAACAGTACGACTAAGTCATCATCCTCCCAC
AGCAAATGTTTTTTTTGAG--AAAAAACTTTAGATCTATTCATTAAACAACATGGTAGTACAAGAACACTAAAAGCAACA
GTCC--------AGGTTCATAGACCATCTAATGATGAACCGAAGGCGTGCCTCCGTCATTATCCCTCCCTCACCGAAGCG
AGGCAAAC------------------------------------------------------------------------
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>chr2B_422
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-------------------------ATGATCTCCATGTGTGAGTAGTTCGATAAGGTATGAGTCGTGGCAAAAGCGTTGC
AACCAATAGATGTATCAGCC-CTTTTTCTTTGAATGTATTTGTGACAATTTAAGTTTTATTTGGCTTGTAAACTATGATA
TTTTTATTTAATTGTAAACTATTTATTTTTGTGATGTAATATTTATGTGATTTAGACTTTAGGCAACGTTAAGATTTGTA
TGCAAAAATTATGTACAAATCTGACATACCGGCCAGGAATGAAATGCATCGGTCAGGGCA--------------------
------GAGCCGGACTTAGCCTTACCAGCCAATCCAAACGGATAAAAAAA--ATCAAATCCAGGTCCGTTTGAGCGTTGG
AGTTGCCCTAATACGATACGATAGGCACCTGGCACATCACATGCATCGCTCACATCGTAATGCAAGCAGACAAGCATACA
AACAAGCGGGCTAGCAGTCT-CCGTGAAAACGACCATCGGCCGGCCGGCCTCAGCCTGTCCGTCCTATCTTCTTCCCACT
CATAGATACCGTTGTTCCCAAAGCTCACAGCGCCACCAACAACCACACACCAC-CCTACTACACCCGTAGCCCAAGATCG
GAGGCGCCATGGCGCCCTCACGCAGAGCGGACCGGCTCCTCTTCCTCCCC-CTCGCGCTGCTGCACCTCCTCTCCTCCTG
CCCGCACACCGCCAGCGGCGCGCCCAACACGGCACCGCTCTCCGTGATCTGCAACGGCGCGGTGTACGGCGCCGGGGACC
CCTTCGCGGAGAGCCTCGCCTACGTGCTGGCCGTCCTGCTGGCCGCCACGCCGCAGTCCCGCTCCCGCGACGCCTACAGC
ATCTCCCCGTACCCGAACGCGTTCGCCTACGGCCACGCCGTGTGCCGCGCCGGTCTGTCGGGCGCGGACTGCGCGAGCTG
CCTCGGCTCCGCCGTCAGCCAGATGAACGCCACCTGCAGCCACGCCGTCGGCGCGAGGGCCGTGCTCGTGGACTGCAGCG
TGCGGTACGAGCAGTACGCCTTCGTGGCTTAGCTACCGCCCGGCCGGCCGGCCGGCCGGCGT--CCTGTGTTGGTACGTC
CGCCTAGGTTTGTGTAGCCTATGGTTTGGCTGATGGAAATTTGGGCTGCCGATTCAGTTTAAGATTCTACGGTGAAACAT
GTGTTGTTCCGTTTTGCTCTGCACACATGTGTTCTAGTTTTTGTGTCCCAATTTGTATTGTGTTGTTTTTTTTCTCAAAA
AAAATATAT-TATCTCCTCCCACCCTCTAAACATGTAAGGCAAGGCCCAAAA--TTTTATGAGCAGGGTACGAGTAATGC
TAGAGCTATAGGCTTGTTTTACATGGTTTATTGTACATGCTGATGTGGAGCAAACTGATTGGCTTAGGATTAGCAGCAGG
GCCCCCACCCCCTGAAATCAGGGGGGGCGAGCGAATTAGCGAGAAGGGGTCCGTAACGGACTTGTAAAACCCCTGTACGT
CTAGGATTATCGGCAGGGTACACTAAATGACCAATAAAGATGGGATGTAAAACAGTATGACTAAGTCATCATCCTCCCAT
AGCAAATGTTTTTTTTTTTGAAAAAAACTTTAGATCTATTCATTAAACAACATGGTAGTACAAGAACACTAAAAGCAACA
CTCC--------AGGTTCATAGACCATCTAATGATGAACCGAAGGCGTGCCTCCGTCATTATCCCTCCCTCACCGAAGCG
AGGCAAAC------------------------------------------------------------------------
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>chr2B_422
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-------------------------ATGATCTTCAAATGTGAGTAGTTCGATAAGATATGAGTTGTGGCAAGAGCCTTGC
AACCAATAGATGTATT-GGCTCTTTTTCTTTGAATGTATTTGTGACAATTTAAATTTCATTTGGTTTGTAAACTATGAGA
TTTTATTCAATTTGTAAACTATTTATTATTGTGATGTAAAATTTATGTGACTTAAACTTTAGGTAATATTAAGATTTGTA
TGCAAAAGTTATGTACAAATATGGCATACCGGCCACGA-CAAAATGGGTCGGC-AGTTGAGCAAACTGGTTAGCACAAC-
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--------------------ATAGGCATCTGGCACATCATATGCATCGCTCACATCGTCATGCAAGCAGACAATCATACA
AACAAGCGGACGAGCAGTCTCCCGTGAAAATGACCATCGGCCGGCCGGCCTGAGCCTGTCCGTCCTATCTT---CCCACT
CATAGATATCGTTGTTCCCAAAGCTCACAGCCCCACCAACAACCACACACACA-CCTACTACACCTGTTGCCCAAGATCG
GAGGCGCCATGGCATCTTCACGCAGAGCGGACCGGCTCCTCTTCCTCCCCTCTCGCGCTGTTGCACCTCCTCTCCTCCTG
CCCGCACACCGCCAGCGGCGCGCCCAA-----------------------------------------------------
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>chr2D_1479
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------------------------------------------------------------------TGTCTTGGTACGTC
CGCGTAGGTGTGTGTAGCCTATGGTTTGGCTGATGGAAATTTGGGCTGCCGATTCAGTTTAAGATTCTACGGTGAAACAT
GTGTTGTTCCGTTTTGCTCTGCACACATGTGTTCTAGTGTTTGTATCCCAATTTGTATTGTGTTGTTGTTCTTCTCAAAT
TTTTTTT-T-TATCTCCTCCCAGCCTCTA------TAAGGCAAGGCCCAAAACATTTTATGAGCCA--------------
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----------------GGTACACTAAAGGATCAACAAAGATGGGATGCAAAACAGTACGACTAAGTCACCATCCTCCCAT
AACAAATGTTTGTTTTCAG--AAAGAACTTTAGATCTATTCATCAAACAACATGGTAGTACAAGAACACTAAAAGCAACA
TAAGTTACATCTAGGTTCATAGACCACCTAGTGACGAGACGAAGGCATGCCGTCGTCATTGCCCCTCCCTCACCAAAGCC
AGGCAAACCTTGTTGTAGTAGATAGTTAGGAATTTGTCATGCTAAGACCCCAAAGGACCAATGAAGCAGAATAGCAACCA
TCGCTGATAAAGAGAACCGTAGATTAGAAGGATCCAACCTGTAGACACACAAATGTAGACGAACAAATACCAAATCCATA
TAGATCCACTGAAGAAAAACACCGATCAAATCTCGCAAGATCCGCCGAAGACACACGTCCACACCCATCGACGACACTAG
ACGCACCACCAGGACGGGAACTAGGCAGCGAGAACCTTGTTTCATCTTAAGGGAGCCGCCATCGCCTCCCCTTCCTGAGC
GGGACATAAACCCTAAACAAACTCAAAAGAACACGTAAATACATAATAGGAGTCCTCCCACAGGCAAGGACAGGGATCCA
TCGCGCCTTCATGCCCTTAGGGCCACAAGAGGCAAGGCAGATCGATGGCGACGCCGGCTGGAGGTGTGGAAACCTTAGTT
GCTGGAATCACTCCCGGGGAGAAAACAACTGATAGTACCCTAGAACAAAGTTATAGTACTCCATAACAAATGTTTTAAGT
GCCTCCCTGGCTGAACTCATAAAATTTAACTCCTCAAACACATCCTCAAACTTTAACACATCAAATTTGAGGAGTTAAAA
GAATGCAAACCTAACCAAACTCCCAAATTTAACTCCTCAAACGAACCAGACCTCATATGAAAGCCCCTCTCCCTCTTCTT
CTTCTTCTTCTTC----------------------
>SNPs
--------------S----S------S-------------S--------SS-----------------S------S----
SS---------------------------------------------------------S---S-----S--S-------
-----S--------S------------S----SS-----S---------SS--------------SS-------------
----------------S---S-------SSSSSSSSSSSS--------------------S-------------------
-S-------------------------S-------S---------------S-----S--------S-------------
S---S------------S--S---S-----------------------------------S-------------------
-------------------S-S-------------S----S------S--------------------------------
-----------------------------------------------------------SS---------S---------
------S--S--S-S-----------------S-S--------------------------------------------S
----S-S---SS----S----------S--S------------------SS---S------S-----S------------
-------------S------------------------S---------S-------------------------------
----------------------S---------------------------------------------------------
-------S------S--------------S-----------------------S--------------------------
----------------------------SS--------------------------------------------------
---------------------------------------------------------------------------S----
-------S------------------------------------------------------------------------
--S--------------------------------------------------S--------------------------
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---------------------------S------------S--S------------------------------------
--------------------------------S----------------------S------------------------
---S----------S-S-----S----------------S------------S-----------S----S--S-------
-------------------------------S-------------------SS---------------------------
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-----------------S------------------------------------------------------------S-
------------------------------S-------------------------------------------------
---S------S-------------------------------------------S-------------------------
--S--------SS-------------S-----------------------------------------------------
----------------S-S-----S-------------S--------------------------------S--------
---------------------S----------------------------------------------------------
------------S--S------------------------------------------S---------------------
S------------------------------------------S--------S---------------------------
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--------S-------------------------------------------------------------S---------
----------------S----------S----------------------------------------------------
-------------SSSSSSSSSSSSSSSSSSSSSS
>forward_737
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-----------------------------------------------------------------------------ACA
CGGATGAAGCGAGACTC---------------------------------------------------------------
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>reverse_1604
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---GTGTTCCGTTTGGTTCTGCC---------------------------------------------------------
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>forward_975
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---------------------------------------------------------------------------CCACT
CATAGATGCCGTTGC-----------------------------------------------------------------
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>reverse_2413
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------------AACAGGAACTAGGCAGCGAG------------------------------------------------
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-----------------------------------
