>input_sequence_76001
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--ATGGCTCCCCAGCGCCGCCACCACG---------CGGCGTGCCTCCTCGTCCTCCTCGCGCTGTGCGCCCCGCCGGCC
CACGGCGGCCGCGCGCTGCCGGCCAGGGTCAGCAAGGCGCAGGCGGCGGCGGCGGCGGCCAACGCGACGGCGACGGCGGA
CGAGTTCCTGGCGCCGCACAACAAGGCGCGCGCGGCGGTCGGCGTGGCCGCGCTGCGGTGGAGCGCGGACCTGACGGCGG
CGGCGGCGTGGACCGCGTCCCAGCAGCAGAAGCAGAAGAACTGCGCGTTCGCGGACATGGGCGCCAGCCCCTACGGCGCG
AACCAGGGGTGGGCGAGCTACCGCGCGCGCCCGGCCGAGGTGGTGGCCTCCTGGGTGGCGCAGGGCAAGTACTACACCCA
CGCCAACAACTCCTGCGCCGCCGGCCAGCAGTGCGGCACCTACACGCAGGTGGTCTGGCGCCGCACCGCCGAGGTCGGCT
GCGCGCAGGCCAGCTGCGCCTCCGGCGCCACGCTCACGCTCTGCCTCTACAACCCGCACGGCAACGTCAAGGGCGAGAGC
CCCTACTAG-----------------------------------------------------------------------
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>chr4A_1_TraesCS4A01G251300
CAGGGGCGATATGGCTCAGTCATCACAGAAATTAGACTTAGACTCTTGAATTTTGATTGTAATTTTATTTTTGAAGGCCG
AGCCACTAATGGCGAAGCACATAGTTTAGCTAAGCACTTTCTTTCTCTCGGTCTGGGACGCCATACTTGGTTGTTAAGTC
CCCATGATCCGAATTGTATCCCACTACATGTGGATTATCATCAATAAAACTTAGTTTTATCCTTAAAAAAAAGAAGCAGT
GATCCGAACTCCCCCTACAAAAAACAAAAGCACTGATCTGTACTAAGTAGACAGCAGCACGGTCTAGCAAGTTGCCTAAT
CGAATAACCTCACTATTTTCTGCATGCATCTTCACAGTGCCCGCCGAATCGTCCTCGATGAGAATC--------------
---------------------ACTTGGTCTTGGATCTATCCGCGCCTCTTCGTGACTACTGCGTATCTGTTTCCCCGACG
TGCACAATCCCCATTGCTGGCCCCAACAGCTCAGCTCAGGTCACGCAGCCGATCGCCGCG-CCCCTCACGCGCTCGGCAC
CGACCCGGTTGCGTTGCGTCCGTCCAAGCCTGGGGACGCCGTGCTGATCTGGATCTCGACACGGGAAAAACCGCATCAGA
TGCCGC------GCGGGGCACTGACACGCACCCACAGGCCACAGGTGACGGACCCAACAACCCCCCGGATCTCGCCAGGT
TCCCCGCTCCTCCCTCCACTTGCGGGCCGCGGGGCGGGATCGAGCCGGGACGGCGCACGCCATGCACCCGTACACGAGCT
GTGGCGTCGCGTCGAGCCCCCAACATCAAC--------------------------------------------------
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------------------------------GAGTGTACAAGTGAGCCATCGCCGACGCACCAGCGAACCAGCGGCTGCCG
CGTAGCCATCGCTCGCCGCTGCCGGCTCCCGCTGAGCTTCTTAACTCGCTAGCTGACAACCCCTCGCGCGCACACTCCAC
TGTCCACTCGCTCGCTCACGCTCAGTGCTCTCACTTCACTGCCCACTGCTCGCCATTACTGGGCTCACCCACCCCAGATC
TCATGGCTCCCCAGCGCCGCCACCACG---------CGGCGTGCCTCCTCGTCCTCCTCGCGCTGTGCGCCCCGCCGGCC
CACGGCGGCCGCGCGCTGCCGGCCAGGGTCAGCAAGGCGCAGGCGGCGGCGGCGGCGGCCAACGCGACGGCGACGGCGGA
CGAGTTCCTGGCGCCGCACAACAAGGCGCGCGCGGCGGTCGGCGTGGCCGCGCTGCGGTGGAGCGCGGACCTGACGGCGG
CGGCGGCGTGGACCGCGTCCCAGCAGCAGAAGCAGAAGAACTGCGCGTTCGCGGACATGGGCGCCAGCCCCTACGGCGCG
AACCAGGGGTGGGCGAGCTACCGCGCGCGCCCGGCCGAGGTGGTGGCCTCCTGGGTGGCGCAGGGCAAGTACTACACCCA
CGCCAACAACTCCTGCGCCGCCGGCCAGCAGTGCGGCACCTACACGCAGGTGGTCTGGCGCCGCACCGCCGAGGTCGGCT
GCGCGCAGGCCAGCTGCGCCTCCGGCGCCACGCTCACGCTCTGCCTCTACAACCCGCACGGCAACGTCAAGGGCGAGAGC
CCCTACTAGCGG-------------GCGGCCGGCGTGTCGGGCTGGTGGCGGCGCCTCTTGCGTTGGGGACGTCGCCGCC
G-GCGCCGGAGCAT-GATCGTCGTTAGAGTTACAAGTACGATCTACCAGCTTCGTGTCTCTGGTTCAGTTAAGGATGATT
TGTGTTGCGAACTTGTGGTGCCTAGAATAACTACTGCTTAGATATAAGAAACTCATGCGGTGGCGTGCCTAGCATATTGT
GTGGAAAATGAACTTGTCATGTTCTCGGCGAGTCCCGACTTCCGAGGGTGAACTTGTTATCGGACAAGAAAATT------
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-----GTTCTCGGTGGGTTGGATTCATGGCATCTACGCATGGCAGTCACCAGACTCACCACATTTGTTTGCACTTGGAGA
CGTGCATTTTTA-ATGAATATGCAGACATGAACTAAGTTGAAAATGGTACTCCC-TTCACAAATATAAGATGTTCTAACT
TTTTTTTCTAGACCAGATGTATATAAATGTATT-----------------------------------------------
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-------------------------------TTAGTG-TTTTTTATGAGGACACATTTTAGTGTATTTGTTCACTCATTT
CAATCCGTATGTAGTTTAAATTAAAATATCCAAAACATTTT--------------AGGGAGTACTATTCTCATGTAAAGT
CTCCTTCCCTTTCTCGTCT---------ATCTTAGGTAATTTTTTGGACGAGGACAGGCCAAAATTTTGGGATTAGTAAC
AGCACTAGTTGGGGAGTTGGCATCTAATCTGGTCTTGTTCTGAAAGATTTGTGATATCAAACACCAAATTGTTTGGTCAC
GTCAGTCCTCACATAGATAATATCCCATTGGGATGGATTGACATCGGTCTTAGAGCATCTCCAACATATGCTCAATAATT
AATTTCTAATGGCAAATGATTAGCATCAGCCGGCCGATCTCCTGTAGCGTTCCGCCGCTCGTGCAGCCGCCAGATCCAAG
TTTCATCGGACGGGTGCACAATGTACATCTTAGTGCAAAACGCCTTATTCGTGACATCATATGACTCAGTCCACGCGCGA
CGCGTGCCTCTACCACCTT
>chr4B_266
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-------------------------AAAAACACTGATCTGAACTTCGTACACAGCAGCACG-TCTAGCAAGTTGCCTAAC
CGAATAATCTCACTATTTTCTGCACGCATCTTCACAGTGCCCGCCGAATCGTCCTCGACCAGAATCATTCCGTATTTTCG
CCCCGAAGTCCCAACCCATCAACTTGGTCTTGGATCTATCCACGCCTCTTCGTGACTACTGCGTATCTGCTTCCCCGACG
TGCACAATCCCCATTGCTAGCCCCAACAGCTCAGCTCAGGTCACGCAGCCGATCGCCGCACCCCCTCACGCGCTCGGCAC
CGGCCCG-----GTTGCGTCCGTCCAAGCCTGGGGACGCCGTGCTGATCTGGATCTCGACACGGGAAAAACCGCATCAGA
TGCT------GGGCGGGGCACTGACACGCACCCACAGGC-----------GACCCAACAACCCCCCGGATCTCGCCAGGT
TCCGCGCTCCTCCCTCCACTTGCCAGCCGCGGG-----ATCGGGCCGGGATGGCGCACGCCATGCACCCGTACACGAGCT
GTGGCGTCGCGT-----CCCCAACATCACCAACTCCTTTTTCGGATCTGACCTTTTTTCTATCGCCATTATTTATGACGA
TAACACACCCTACCGCCAAGGTCTTTGACAGTAAGACTTACCTGCACCATCGCTTTCATTTTTTGCAGAAAGAACCCTAC
CGCCGCAGTCGATGGCGGTAGGACGTGTAACCCTACCGCCATAGTCTATGGCGGTAGGGTCCTTTTTGCAAAAAATGAAT
TTTTTATTGCATGCGTGCCTTTATTATAATTACATAGATGCCCCTACCGCCAAAGACCATGGCAGTAGGGTCCTTTTTCA
CATCGAACAGACGTGACGGTGTAATTAAGTCCTACCGCCAAAGACCTTGGCGGTAGGCCGTGTTAGCCTACCGTCATAGA
CAATGACGATAGAAAAAAGGTCAGATCCGAAAAACTTTTGCACATAGGGTCAAATCATGCTTAAGTTAAGGAAAAAGGTC
AAAACAGTGAATTTGGCCACTCCAATGTAGGA--GTACAAGTGAGCCATCGCCGCGGCACCAGCGAACCAGCGACTGCCG
CGTAGCCATCGCTCGCTGCTGCCGGTTCCCGCTGAGCTTCTTAACTCGCTAGCTGACAATCCCTCGCGCGCACACTCCAC
TGTCCACTCACTCGCTCACGCCCAGTGCTCTCACTTCACTGCCCACTGCTCGCCATTACTGGCCTCACCCACCCCAGATC
TCATGGCTCCCCAGAGCCGCCACCACGCGGCGGCCACGGCGTGCCTTCTCGTCCTCCTCGCGCTGTGCGCCGCGCCGGCC
TACGGCGGCCGCGCGCTGGC------GGTCGGCAAGGCGCAGGCGGCGGCGGCGGCA---AACGCTACGGCGACGGCGGA
CGAGTTCCTGGCGCCGCACAACAAGGCGCGCGCGGCGGTCGGCGTGGCCGCGCTGCGGTGGAGCGCCGACCTGACGGCGG
CGGCGGCGTGGACCTCGTCCCAGCAGCAGAAGCAGAAGAACTGCGCGTTCGCGGACATGGGCGCCAGCCCCTACGGCGCG
AACCAGGGGTGGGCGAGCTACCGCGCGCGCCCGGCCGAGGTGGTGGCCTCCTGGGTGGCGCAGGGGAAGTACTACACCCA
CGCCAACAACACCTGCGCCGCCGGCCAGCAGTGCGGCACCTACACGCAGGTGGTGTGGCGCCGCACCGCGGAGGTCGGCT
GCGCGCAGGCCAGCTGCGCCTCCGGCGCCACGCTCACGCTCTGCCTCTACAACCCGCACGGCAACGTGAAGGGCGAGAGC
CCCTACTAGCGGCCGGCCGGGCTGGGCTGCCGGCGTGTCAGGCTGGTGGTGTCGCCTC-TGCGTTGGGGCCGTCGCCGCC
C-GCGCCGGAGCATCGATCATTGTTAGAGTTACAAGTACGATCT---AGCTTCGTATCTCTGGTTCAGTTATGGATGATT
TGTGTTGCGAACTTGTGGTGCCTAGAATAACTACTGCTTAGATATAAGAAACTCATGTGGTGACGTGCCTAGCATATTGT
GTGGAAAATGAACTTGTCATGTTCTCGGCGAGTTCCGACTTCCGAGGGTGAACTTGTTATCGGAGAAGAAAATTGTGTTT
TTAACACGGTACACCCCTATGAACGCACATATGCACACCCTATCACTATGAGCACCTCCGAAAGATTGAGCCGGCATATC
ATCTTGAAATTTACGAAGTCATTGTAGCCACCTCGTCATCGATGGAAACGTCTCCTCCCACGAAATGCGCATCGCCGAAA
ATCCTGAAATAAATCCAGAAATAAATGCGAGCACCAGGACTTGAACCCTGGTAGGGTGGGGATACCACAGTTCGCGAAGA
AAATTGTTCTCAGTGGGTTGGATTCATGGCATCTACACATGGCAT---------TCACCCCATTTGTTTGGACTTGCAGA
CGTGCACTTTTTTATGGATATGGAGACATGAACTAAGTTTAAAATAGTACTCCCGTTCACAAATATAAGATGTTCTAACT
TTTTTT-CTAGATCAAATGTATATAAACATATT-----------------------------------------------
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-------------------------------TTAATATTTTTTTACGAGGGCACATTTTAATGTGTTTGTCCATTCATTT
CAATCTGTATGTAGTTTAAATTGAAATATCCAAAATATTTTGTATTTGTGAACGAAGGGAGTACTATTCTGATGTAAAGT
CTCATACCCTTTTTCTTCTCGTCTTATCATCTTGAGATTAA-----------------------------------TAAC
AACACTAGTTGGGGAGTTGGCATCTAATCTGGTCTTGTTCTGAAAGATTTGTGACATCAAACACCAAATTGTTTGATCCC
GTCAGTCCTCACATAGATAATATTCCATTGGGATGGATTACCATGGGTCTTAGAGCATCTCCGACATACGCTCAATAACT
A-------------------------------------------------------------------------------
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>chr4D_268
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---------------------------AAGCACCGATCTGAACCTCGTAGGCAACAGCACG-TCTAGCAAGTTGCCTAAT
CGAATAATCTCGCTATTTTCTGCACGCATCTTCACACTGCCCGCCGAATCGTCCTCGATCAGAATCATTTCGTATTTTCG
CCCCGAAGTCCCATCCCATCAACTTGGTCTTGGATCTATCCACGCCTCACA-------------ATCTGTTTGCCCGACG
TGCACAATCCCCATGGCTGGCTCCAACAGCTCCGCTCAGGTCACGCAGCCGACCGCCGCACC-CCTCACGCGCTCGGCAC
CGGCCCG-----GTTGCGTCCGTCCAAGTCCGGGGACGCCGTGCTGATCTGGATCTCGACACGAGAAAAACCGCATCAGA
TGCCGATGCCGGGCGGGGCACTGACACGCACCCACAGG-------TGACGGACCCAACAACCCCCCGGATCTCGCCAGGT
TCCGCGCTCCTCCCTCCACTTGCGAGCCGCGC-GCGGGATCGAGCCGGAGCGGCGCACGCCATTCACCCGTACACGAGCT
GTGGCGTCGCGTTGAGGCCCCAACATCAAC--------------------------------------------------
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------------------------------GA--GTACAAGTGAGCCATCGCCACGGCGCCAGCGAACCAGCGACTGCCG
CGTAGCCATCGCTCGCCGCTGCCGGTTCCCGCTGAGCTTCTTAACTCGCTAGCTGACAATCCCTCCCGCGCACACTCCAC
TCACCCATTCACGGACTCTCAGTC-----CTCACTTCACTGCTCACTGCTCGCCATTACTGGGCTCACCCACCCCAGATC
TCATGGCTCCCCAGCGCCGCCACCACGCG---------GCGTGCCTCCTCGTCCTCCTCGCGCTGTGCGCCGCGCCGGCC
CACGGCGGCCTCGCGCTGCCGGCCAGGGTCAGCAAGGCGCT------GGCGGCGGCGGCCAACGCGACGGCGACGGCGGA
CGAGTTCCTGGCGCCGCACAACAAGGCGCGCGCGGCGGTCGGGGTGGCTGCGCTGCGGTGGAGCGCCGACCTGACGGCGG
CGGCGGCGTGGACCTCGTCCCAGCAGCAGAAGCAGAAGAACTGCGCGTTCGCGGACATGGGCGCCAGCCCCTACGGCGCG
AACCAGGGGTGGGCGAGCTACCGCGCGCGCCCGGCCGAGGTGGTGGCCTCCTGGGTGGCGCAGGGCAAGTACTACACCCA
CGCCAACAACACCTGCGCCGCCGGCCAGCAGTGCGGCACCTACACGCAGGTGGTGTGGCGCCGCACCGCCGAGGTCGGCT
GCGCGCAGGCCAGCTGCGCCTCCGGCGCCACGCTCACGCTCTGCCTCTACAACCCGCACGGCAACGTCAAGGGCGAGAGC
CCCTACTAGCGGCCGGC-----------------GTGTCGGGCTGGTGGCGGCGCCTCTTGCGTTGGGGACGTCGCCGCC
GGGCGCCGGAGCATCGATCGCTGTTAGAGTTAAAAGTACGATCT---AGCTTCGTGTCTCAGGTTCAGTTAAGGATGATT
TGTGTTGTGCACTTGTGGTGCATAGAATAACTACTGCTTAGATATCAGAAACTCATGTGGTGACGTGCCTAGCATATTGT
GTGGAAAATGAACTTGTCTTGTGCTCGGCGAGTTCCTACTTCCGAGGGTGAACTTGTTATCGGAGAAGAAAATTGT----
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-------TCTCGGTGGGTTGGATTCATGGCATCTACGCATGGCAG---------TCACCACATTTGTTTGCACTTGGAGA
CGTGCATTTTTA-ATGAATATGCAGCCATGAACTAAGTTGAAAATGGTACTCCC-TTCACAAATATAAGATGTTCTAACT
TTTTTTTCTAGATCAGATGTATATAAATATAAGGCCTAGTTTGGCAGCACAGTTTATCTAAAACTGTAGTATTACAAAAT
CTCGGTATTCCAACGCGTGGACGTTGAATACTTCAGTATCTAAAAACCGCAGTTTTTCGTGGCTTTGGCAAAACCATTGA
GGCGTTTGCCAAATCGTTTTTGTTTTGTTTTCTCCAATTGTCACCTGTTGTTAGGTTGCATGGACAACCCTGAAGATATC
GAGCTGAACCAAACTCAGCTACACGATCTGACCAGCTTGTGCTCACGGCTGATGTATGCATGCAACGCTATGCAGAGCAA
TTGACGAGATCAACAACAAAGTAGGCGTACAAGGGCGCGTACCTTCCTTCCCATGTGTCGAGCTTTAATTGTTTATTCAT
AGCTACAGAGAAATGAAGTATAATCACACTAGTTGACGGCCGAAAGATGAAGTTGAAAGACCGACGAGAGCGATCATTTC
TCTGTTTTAAAAAAAGAGGTCCAGACCTCTTTTTTAATACCGTGAAAAAACCATGGTTTTAGAGATACCATGGTTCTGTA
AACTGGAGTATTTGTTGACGCCAAACGCATCAAAGTATTTTAACCGTGGTTTCTAAAAATATCATGTTTTTTTTTGAAAA
CTTCAAAAATACTGTGGTGCCAAACGCAGCCTTAGTG-TTTTTTATGAGGACACATTTTAGTGTGTTTGTTCACTTATTT
CAATTCGTATGTAGTTTAAATTAAAATATCCAAAACATTTT--------------AAGGAGTACTA-----ATGTAAAGT
CTCCTTCCCTTTCTCGTCTCGACTTATCATCTTAGGTAATTTTTTGGATGAGGACGGGCCAAAATTTTG-----------
-----TAGTTGGGGAGTTGGCATCTAATCTGGTCTTGTTCTGAAAGATTTGTGACATCAAACACCAAATTGTTTGATCAC
GTCAGTCCTCACATAGATAATATTCCATTGGGATGGATTAACATGGGTCTTAGAGCATCTCCAACATATGCTCAATAATT
AATTTCTAAT----------------------------------------------------------------------
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>SNPs
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSS---------------S---SS---------------S------------------
-------S----------------S----------------------------------S--------------------
-----------------------------------------S--------------------------------------
-----------------------------------------------------------S--------------------
--S----SSSSS--------------------------------------------------------------------
-----S---------------------------------SSSSSS-----------------------------------
---S--------------------S-------------------------------------------------------
------------S---S---------------------------------------------------------------
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--------------------------------SS--------------------SS-----------------S------
-------------------------S---------------------------------S--------------------
---------S-----------S----------------------------------------------------------
-----------------------------------------------------------------------S--------
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------------------------------------------------------------------S-------------
--------------S-----------------------------------------------------------------
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----------S-------------------------------------------S-------------------------
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---------------------------S----------------------------------------------------
---------------------S----------------------SSS---------------------------------
---------------------------------------------------------S----S-----------------
---------------------------------S------------------------------S---------------
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---------------------------------------------SSSSSSSSS--------------------------
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------------S---------------S---------------------------------------------------
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----------------------------------------------------------------S---------------
----------------------------------------------------------------------S---------
------------------------------------------------S------S-------------SSSSSSS----
-S----------------------------------------------------S--------------------S----
-----------------------S---------------S----S-----------------------------------
----------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSS
>forward_152
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----------------------------------------------------CTGGGACGCCATACTTGGTT--------
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>reverse_2303
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--------------------------------------------------------------GCGTGCCTAGCATATTGT
GTG-----------------------------------------------------------------------------
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