>input_sequence_81891
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--------------------------------------------------------------------------ATGGAG
ACTATCCGGCATCCATGGGCAAGCCATCATAGCCCAAGCAGAAACACATATCAAAACCGGCAGCCGGTCGCCACGATGTT
TCGACGCGCCAAGACCACGACGATAGCCACACCACCCTCCGATGGCGAGGTGCGGGTGCATAAGGTCGAGAAGATTGAGC
TTGTCCGCAATCTCGTGACCAAGCCGTCGATCTACTACGGCGCCAACCCGATGGCAGCATCGACCATGAGGCGAGGTGCA
GCCGGTCACGGCACGGCCGCCAACACCGGTAAGGCTACTGGCGCCTCGAGGCCGGGGGTCGTGTCCATAGAGGATATTAA
CAAGAGGTCTGAGGCTTACATCCGGGAGAGGAAGAGGCTCTTCCAGGGCCTGAAGTAG----------------------
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-----------------------------------
>chr1B_1_TraesCS1B01G102000
TGGGACAACCCTGATACCTTTACAAGGTAGGAGTAGGTTACAGAGATGCT---ACCTTGAATATAAAATCAATGCCGCCT
GCAGCGTGTTACATGCTTACTTTTCAGAACTCAAAAACAATGAAGCCAATCAACCCGATCACTTCTGACACGTAC-----
--------TGTATCTGACAAATGCAGGTTAGGTTGGGATTCTAATCATGATATGATGCCAGACACACTGATTAATTAATC
TGCCAAACTGAATGTAAAGCCGCTAACTAAGCTCCATTAATTTGCAATTGCCCTTATCTTTATCATCAAGGATACGGTTT
TGCCAGCGGTCAACCAGGGCCAGTGGTACACTACTGACTAGTGTAGTGCAGTTTCTTTTTTCTGATC---TATGGGTGCA
ACTATTTGGAGCTGGTCCCATGAGATTTATTTAACTGATTCGGATGGCGGTTTAGCAATTCAGATTAGTAATGCTTATGT
GTTTTTATGTGATCTTTATTCTTGTTGGCAGAGTCCTTTGTGATTTCTTTATTTTTTACTGAAACTATAAACTTTGCAAT
AAAATGGTGTGTGCATGAACCGATGCAGAGGTTGAGGTACGACCTCACATTA-AAAAACATCTC-AAAAAATTAGGTCAT
CAATCTCTGTAGTCTAGCCTCTTCCTTTACACACGAGAGGTTTTCT----------------------------------
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---------------------------------------------------------CCTCGTAGTCGAGATCTTTTCTG
GTTCTATACTTGTCCATACTTTAAAGCATGACATCGATGCTATAATACTTGATATTTTGCCACCAGAGGCTCCACAAAGA
TGCCCAAATGATAAGTAACCGCAATCACTTGTTCATTTTCCATAGCATGTACCAGACGAATTCAGGCAAGAAGTTTATGA
GAATATAAAAATGTGGTGAGGGAGAATTTCAGAACAAACATAAACCAAGCGAGAATAATGCCACTTGCGCGCTACCGGCG
AGGGACAGGCCAGGCCTGAA--AAATCCTACCACACCGAACCACTTCCAGCCTAGCTAGCGCTCTGGCCTATAAATGGAG
ACTATCCGGCATCCATGGGCAAGCCATCATAGCCCAAGCAGAAACACATATCAAAACCGGCAGCCGGTCGCCACGATGTT
TCGACGCGCCAAGACCACGACGATAGCCACACCACCCTCCGATGGCGAGGTGCGGGTGCATAAGGTCGAGAAGATTGAGC
TTGTCCGCAATCTCGTGACCAAGCCGTCGATCTACTACGGCGCCAACCCGATGGCAGCATCGACCATGAGGCGAGGTGCA
GCCGGTCACGGCACGGCCGCCAACACCGGTAAGGCTACTGGCGCCTCGAGGCCGGGGGTCGTGTCCATAGAGGATATTAA
CAAGAGGTCTGAGGCTTACATCCGGGAGAGGAAGAGGCTCTTCCAGGGCCTGAAGTAGCTCCAGATATA--------TGG
AGATGATCTTGCACTACTATTGATCACGTCTACATATACACACCGACTAATGGATGTATGCATGTGTGGAATTTCCCCTC
GATGGATATGTAAGATGTG----CTATGTAAACGTGTTGTCGTGTGATATCGATCCACTTGTTGCAATTAAT--TGTGTG
TCCTCTTAGGAAGTGTGGAGTCAAGTCCTCTTAGAAAGTGTGTAGTTAAATCTTTACTACCGATGTATAAATAAACGATT
ATTAAGTGCAGATATATAAACAAAATATAACTCAGACTTCAGATTGTTTTGGTTTGTTCACTGCTATACTGATATGTGAA
ATGATGATCAAAGTTTTATTTCAAAGATCTTGCCAGTGCATTTATATTCTCTTTCTTTGGCGACATATATATCCAGTGCA
AACAAGGA---CTAGCGCTCAAACAAGAGAATCGTATGTAATCAGGCAAATGTCTTTCAAATCATCAAGAAAATGGTTTT
CTTGGATGTAATCTTGTGAGTGTCCTTCAAATCGTCAAGAAAGGCCGAGTCCAATCTTTGGGGACCGGCGGATCCTAAGC
TTGATGTTGTGAGTAGCCTGGTGCGTGTTGTGAGTACCCAATTTAACATCAAGACATAGTTTTTGACTCCTTTCCATAGT
TTGTTTTGATCAAGACATAGTTTTGTAGACAAATTAAGAAAGTGCCAGTCCTTGATAATGTTGCAACACAATCTTTTCTC
GGTGTTGTCGTTGTTGTTCTCCCTGTTAGAAAGCCAGATTCTTTGATTCGTGTTTCGACAGTAAATAAACTGAGTTACTC
AAAAATTATGCACTGTCGACAGACTTAAATATCAGTTTTTTTTATGAATTACCCCAATTAACTATCAGTTAGACATATAG
ATTTTTTTTGTGAGGTAGTTAGACATATATAGTTGCAAGGCAATAAATGCTTGATCATCAAGTGGTGGTGGAAAATCATG
ACCATCACCTCGGATAAACCTCTCTGGCTCAACAT
>chr1A_1
TGGGACAACCCTGATACCTTTTACAAG-----GTAGGTTACAGAGATGCTTAAACCTTGAATGTAAAATTAATGCCGCCT
GCAGCGTGTTACATGCTTACTTTTGGGTACTTAAGAACTATGAAGCCAATCAACCCGATCACTTCTCACACGTACTTCTC
ACAGGTACTGTATCTGACAAATGCAGGTTAGGTCGGGATTCTAATCATGCTATG---------ACAATGATTAATTAATC
TGCCAAACTGAAAGTAAAGCCACTAACTAAGCTCCACTAATTTGCAATTGCCCTTGTCTTTATCATCAGGGATGCGGTTT
TGCCCGCGGTCACCCAGGGGTAC-------------ACTGGTGTAGTGCAGTTTCTTCTTCTGATCTAAGTATGGGTGCA
ACTGGTTGGAGCTGGTCC-ATGAGATTTATTTAATTGATTCGGATGGGGGTTTAGCAATA-AGATTAGTAATGCTTATGT
GTTTTTATGTAATCTTTATTCTTGTTGGC--AGTCCTTTGTGATTTTTTC---TTT--CTGAAATTATAAACTTTGCAAT
AGAATGGTGTGTGCATCAACCGATGCAGAGGTTGAGGTACGACCTCACTCTCGAAAAAAAAACTTGAGAAATTAGGTCAT
CAATCTGTGTAGTCTAGACTCTTTCTTTACAAGCACGGGATTTTCTTCTCATTTTTTTTAAAAAGGAGGATATACCCCCG
GCCTTTGCATCTGTGTGATGCATGCAACTATTTTATTAATTATTCACATAGACCTTACAAAGTAATACTCCCTTTATTTT
TTTAGTCTGCATATAAGATTTGGTTAAAGTCAAACTTTGTTAGCTTTGACTAAGTTTATAGAAAAGAATATCAAGATTCA
GAATATGAAATCAATATTATTAGATACATCATGAAATTAATTTTCATACCATATAACTTTAATATTGTAGATGCTGATAC
TTTTTCCTATAAAGTTGGTCAAACTTTATAAAGTTTGACTTTGTCCAAATCTTATATCCGGACTAAAATGAAATGGAGGG
AGTACATCAGTAAGTCTGAAGCTATCATCTTTGCAACACCTGTCGCTACTCCTATGCTCTCATAATCGAGATCTTTTCTG
GTTCTATACTTGTCCATACTT-AAAGCATGACATTGGATGC-TAATACTTGATATTTTTGCACCAGAGGCTCCACAAAGA
TGCCCAAATGATAAGTAACCGCAATCACTTGCTCATTTTCCATAGCATGTACCAAACGAATTCAGGCAAGAAGTTTATGA
GAATATAAAAA---------------------------------------------------------------------
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-----------------------------------
>chr1D_36
-----------------------------------GGTTACAGAGATGCTTGAACCTTGAATATAAAATTAATGGCGCCT
GCAGCGTGTTACATGCTTACTTTTGGGTACTTCAGAACTATGAAGCCAATCAACCCGATCACTTCTCACATGTACTTCTC
ACAGGTACTGTACCTGACAAATGCAGGTTAGGTCGGGATTCTAATCATGCTATG---------ACAATGATTAATTAATG
TGCCAAACTGAAAGTAAAGCCACTAACTAAGCTCCACTAATTTGCAATTGCCCTTGTCTTTATCATCAGGGATGCGGTTT
TGCCCGCGGTCACCCAGGGGTAC-------------ACTGGTGTAGTGCAGTTTCTTCTTCTGATCTAAGTATGGGTGCA
ACTGGTTGGAGCTGGTCC-ATGAGATTTATTTAACTGATTCGGACGGGGGTTTAGCAATA-AGATTAGTAATGCTTATGT
GTTTTTATGTAATCTTTATTCTTGTTGTCAGAGTCCTTTGTGATTTCTTT---TTTTACTGAAATTATAAAATTTGCAAT
AAAATGGTGTGTGCATCAACCGATGCAGAGGTTGAGGTACGGCCTCACTCTCGAAAAAACCCTC-GAGAAATTAGGTCAT
CAATCTACATAGTCTAGACTCTTCCTTTACACACACGGGATTTTCT----------------------------------
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---------------------------------------------------------TCTCATAGTCGAGATCTTTTCTG
GTTCTATACTTGTCCATGC-TTAAAGCATGACATCGATGCTAAA--ACTTGATATTTTTGCACCAGAGGCTCCACAAAGA
TGCCCAAATGATAAGTAACCGCAATCACTTGCTCATTTTCCATAGCATGTACCAAACGAATTCAGGCAAGAAGTTTATGA
GAATATAAAAATGTGGTGAGAGAGAATTTCCGAACAAACATAAACCAAGCGAGAATAATACCACTTGCGCCCTCCCGGCG
AGGGACAGGCCAGGGCTGAAAAAAATCCTACCACACCGAATCACTTCCAGCCTAGCTAGCGCTTTGGCCTATAAATGGAG
ACCATCCGGCATCCATGGCCAAGCCATCATAGCCCAAGCAAAACCACATATCAATACCGGCAGCCCGTCGCCACGATGTT
TCGACGCGCCAAGACCACGGCGATAGCCACGCCACCCTCTGACGGCGAGGTGCGGGTGCATAAGGTTGAGAAGATCGAGC
TCGTCCGCAACCTTGTGACCAAGCCGTCGATATACTACGGCGCCAACCCGATGACAGCATCAACCATGAGGCGAGGTGCA
GCCGGTCACGGCACGGCTGCCAACACCAGTAAGGCTACCGGCGCCTCGAGGCCGGGGGTCGTGTCCATAGAGGATATTAA
CAAGAGGTCTGAGGCTTACATCCGGGAGAGGAAGAGGCTCTTCCAGGGTCTGAAGTAGCTCCAGATATA--------TGC
AGATGACCTTGCACTACTATTGATCACGTCTACATATATACACCGATTAATGGATGTATGCATGTGTGGAATTTCCCCTC
GATGGA-ATGTAAGATGTG----CTATGTAAACGTGCTGTCGTGTGATATCGATCCACTTGTTGCAATTAAT--CGTGTG
TCCTCTTAGAAAGTGTGTAGTCAAGTCCTCTTAGAAAGTGTGTAGTCACATCTTTACTACCAAT-TATAAATAAACGATT
ATTAAGTGCAGATATATAAACGAAATATAAATCAGACTTCAGATTGTTTTGGTTTGTTCACTGCTATACTCGTATGTGAA
AAGATGATCATAGTTTTATTTCAAAAATCTTGCCAGTGCATTTATATTCTCTTTCTTTGGCGACATATATATCCAGTGCA
AACAAGGAGGACTAGCGCTCAAACAAGAGAATCGTATGTAATCAGGCAAATGTCTTTCAAATCATCAATAAAAGGGTTTT
CTTGGATGTAATCTTGCGAGTGTCCTTCAAATCGTCAAGAAAGGCCGAGTCCAATCTTTGGGGACCGGCGGATCCTAAGC
TTGATGTTGTGAGTAGCCTCGTGCGTGTTGTGAGTACCCAATTTAACATCAAGACATAGTTTTTGCCTCCTTTCCATAGT
TTGTTTTCATCAAGACATAGTTTTGTAGACAAATTAAGAAAGTGCCAGTCCTTGATAATGTTGCAACACAATCTTTTCTC
GGTGTTGTCGTTGTTGTTCTCCCTGTTAGAAAGCCAGATTCTTTGATTCGTGTTTCGACAGTAAATAAACTGAGTTACTC
AAAAATTATGCCCTGTCGACAGACTTAAATATCAGTTCTTTTTGTGAATTACCCCAATTAACTATCAGTTAGACATATAG
ATTT-TTTTGCGAGATAGTTAGACATATA--GTTGTAAGGCAAAAAA---------------------------------
-----------------------------------
>chr1A_851
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--ATATAAAAATGTGGTGAGAGAGAATTTCAGAACAAACATAAACCAAGCGAGAATAATGCCACTTGCGCGCTCCCGGTG
AGGGACACACCATGCCTGAA--AAATCCCACCACGCCGAAGCACTACCGGCCTAGCTAGCGCTATGGCCTATAAATGGAG
ACCATCGGGCATCCATGGCCAAGCCATCAAAGCCCAAGCAAAAACACATAGCAAAACCGGCAACCGGTCGCCACGATGTT
CCGACGTGCCAAGACCAAGGCGATAGCCACACCACCCTCCGACGGCGAGGTGCGGGTGCATAAGGTCGAGAAGATCGAGC
TCGTCCGCAACCTTGTGACCAAGCCATCGATGTACTCTGGCGCCAACCCGATGGCAGCATCAACCATGAGGCGAGGTGCT
GCCGGTCATGGCACGGCCGCCACCACCGGTAAGGCTACGGGCGCCTCGAGGCCGGGCGTCGTGTCCATAGAGGATATTAA
CAAGAGGTCTGAGGCCTACATCCGGGAGAGGAAGAGGCTCTTCCAGGGCCTGAAGTAGGACGGTATATTTGGAGTCTTGG
AGATGATCTTGCACTACTATTGATTTCGTCTACATAGATACACTGATTAACGGATGTATGCATGTGTGGAATTTCCCCTC
GACGGA-ATGTAAGATGTGCTACCTATGTAAACGTGTTGTCGTGTGGTATCGATCCACTTGCCGCAGTTAACTGTGTGTC
TCATCTTAGAAAGTGTGTAGTCAA--------------------------------------------------------
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-----------------------------------
>SNPs
---------------------SSS-S-SSSSS-------------------------------------S----------
------------------------SS-S---S--S---S---------------------------S-------------
---------------------------------S---------------S----SSSSSSSSS---S-------------
------------S--------S--------------S------------------S------------S----S------
----S-------S------SS-SSSSSSSSSSSSSS---S-----------------S--SSSSSSS-------------
---SS-------------S----------------------------S-----------SS-------------------
----------S---------------------------------------SSS-----------S---------------
----------------S-------------------------------SS-S------S-S----S-S------------
------S----------S----------------SS-S-S----------------------------------------
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---------------------------------------------------------S---S------------------
----------------------------------------------------------SS--------------------
-------------------------------S----------------------S-------------------------
--------------------S----------------------------------------------------S------
----------------------------------------S----------------------S----------------
--S---------------S---------------------S---------------------------------------
-------------------S----------------------S--------------------------------S----
-S--------S--S-----------------S-----------------------------S------------------
--------------------------------------S-----------------------------------------
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--------------------------------------S-------S---------------------------------
------S-------------------------------------------------------------------------
---------S-------S----------------------------S-S------------S--S---------------
---------------------S--------S---------------------------------------SS--------
-S--------S--------------S------------------------------------------------------
--------------------------------------------------------------------S----S------
----------------S---------------------------------------------------------------
-------------------S---------------------------------------------S--------------
-------S------------------------------------------------------------------------
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-----------S-------------------------S-----S------------------------------------
----S-----S---S--------------SS----S-------S---SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
>forward_460
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----------------------------------------CGGATGGCGGTTTAGCAATT--------------------
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>reverse_2808
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-------CCTCGGATAAACCTCTCTGGC-------
