>input_sequence_87156
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--------------ATGGCGGCGACCGCGACGACATTGATGAGGATGGTGCTGCTGGTGGTGCTCTTGGTGCAGATGCTG
AACGTCATGGCC---GTCTCGGCGAGGACTTTGAAGGGGGGCGCCT---GGCTCAAGGACGGCATCGGGATGGTGATGGA
GATGCTCGGCGACCTGAAATCAGGCTCCAGCCCTCCCACGCACTGCTGCTAA----------------------------
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>chr2D_1_TraesCS2D01G275600
TCTGTGTGTCCAGTGCCCTCGGTAAACGATTCAATGGAGAATTCGTGCAAGACTCGTTCATGGTCTCTCCAACACGCCGG
TCTGAATCGATCAGCGCACGATCATGCTACACCCCGGCTCTTGAACCGTTCCAGCTTGTTCGACAAGTAGAACCGTATAT
ATTACTACGT---------ACTAGCAGGCTAGGCTAGCAGCAGAGGAAGAGTCGGAGAAACCTGCACTAACGTAAAGGAA
TGCGTGCTTTTGAATCCTGAATTCGTTCGGGTCAAACGCAAGAACACG----AATATTATTTGTTCAACGAGAAGCTGAA
ATTCCTCGTGTTCATGTACATGGGTTTGGTCCTGGTCGTGAAAGGGAGGAGGCAGGGAAAACTTGCATACAGACACGCAT
CGTCCTT--TTATGTGGCCAACATGAACAATGAACAATCTATCGTGTTCACTGTCGTACTACTACTGCTACTTAGTCAAG
AAATACTGTGGCTCCGGTGGACCGAAAGGAG-------------------------------------------------
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--------------TATCTGTTGGTAGCTCTTGCCATGCATGGGCGGGTTGAGGTAAACGAACTGATGTCTTGTCCATGA
GAAAGATTGACCGT-CAGTGTTGACGTCATCAAAGACCAAGACTACTCGTCGGTTGCTTTAGGTAAATCAACGGTG----
------------------TCGAAAGGTCAAAGGGCCGGAACCTGTCCAACACGAAAAATACGAGGTGGGGTTGGGAGATC
GGAAGCAGTGACCCATTCTACACGGTCGCGCAAAGCAACACACGTATGCGCATGCATGTGTGTGCACCTACTACCTACGT
GCACCTACCCCCC-------TCTCACCTCTATATAAACCCAGACCCACCATGCAAATCAACCCATCTCCATTC--AGCAG
AAACAAACCAAA--------------------------------------------------------------------
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----------------------CCAAACCAAAGATCTCAGAAGTCAGAAGCCCTGCTGAACCTCGGAACCTGAAGCTACG
AAACACCAAGCAAGGCAAATCTT-----TTCTCCCCCTAGCTA--GATCAAAACCTTCTGT----CTCCCGTCTGCACA-
--GCCACAACAGCGATGGCGGCGACCGCGACGACATTGATGAGGATGGTGCTGCTGGTGGTGCTCTTGGTGCAGATGCTG
AACGTCATGGCC---GTCTCGGCGAGGACTTTGAAGGGGGGCGCCT---GGCTCAAGGACGGCATCGGGATGGTGATGGA
GATGCTCGGCGACCTGAAATCAGGCTCCAGCCCTCCCACGCACTGCTGCTAATCGAACCGATCAAGCA------------
--------CACAGTTTTTCTTCGGTTAGAAGATGTAAAGATGCGAGGCTCTCTTTTTCT----TTTTGCCTCTTTGCTGT
AGAGGGGTATAGATAGATAGGATCATTCTTTCGTTG--GAGA-TCAACTGGCCACTCGACACAGGTCTAACTGTAACCAT
GT---TATTTGAGTAC-AAAATTTGTTCATTCTTTCAAGCAA-TCGATGACAGTATGTGTATGAATTGTCTCTGGTCTTA
GATGTTTCGACCGATTTCAAAAGTATGGGAGCGTCTAAATATCAGTTAACTGAAAAAATGATCGCATCAGTCACTTTGTT
TCTATTCGTCGGATCAAAAACTGTCCGCACTTCGTCTTCTTCCTCCCCAGATTCGGTCGACCACCTGTGCAACCGCCGGC
CCTACCGTGTCCCATCCGCCTGCCTCCACCACCCGGGGACGGCGGGCGCAGTCGCGCACCGCCTCGCCGCCCCGCCCTCC
CCGCATCGTTGTTGCTGACCGCCGCCCCGGCCATTCCTCTAAGCTCCGCAGCAATAGAGAAGAANNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCACA
CCCCTAAAATAGATAATGGGGCAAGGCTTCCCCCTAAGATAGAT
>chr2A_33
AAG--------------------------------GGAGAATTCGTGCAAGACTCGTTCATGGTCTCTCCAACACGCCGG
TCTGAATCGATCAGCGCACGATCATGCTGCACTCCGGCTCTTGAACCGTTCCAGCTTGTTGGACAAGTAGAACCGTATAA
--TACTACGT---------GCTAGCAGGCTAGGCTAGCGGCAGAGGAAGTGTCGCAGAAACCTGCACTAACGTAAAGGAA
TGCGTGCTTTTGAATTCTGAATTCGTTCGGGTCAAACGCAAGAACACG----AATATTATTTGTTCAACGAGAAGCTGAA
ATTCCTCGTGTTGGTGTACAT-GGGTTGGTCCTGGTCGTGAAAGGGGGGAGGCAGGGAAAACTTGCATACAGACACGCAT
CGTCCTTGTTAATGTCGCCAAC-------ATGAACAATCTATCGTGTTCACTGTCGTACTACCACTGCTACTTGGTCAAG
AAATACTGTAGC--CGTTGGACCAAATGTATCGTGTATCTTAATGTCTTATAGAGTTCGAGTCAGAAAGGATGTACTCTG
TTTTTATTTACTCTGCATATTAGGTTTGACTGAAGTCAAACTTCGTAAAGTTTAATCAAGTTTATGGAAAAAAATACAAA
CATTTACCCTAACAAATCCATATGACGTGAAAGTACATTCAATAATGAATCTAATGATATTAATTTGTTATTATATATGT
TAATATTTTTGTTTATAAACTTTGCAAAGTTTACAAAGTTTGACCTTGAGCAAAGCTAATACGTGGATTAAATAAATAAT
AAAAACAGGGGCAATATATGTTGGTAGCTATTGCCATGGGTTGGGTTGAATTAAGTAACTAACTGATGTCTTGTCCATGG
GAAAGATTGACCGTACAGTGTTGACGTCATCAA-GACCAAGACTACTCGTCGGTTGCTTTAGGTAAATCAACGGTGCTGA
CCGTCTCTAAGGTCTGTGTCGACGGGTCAAAGGGCCGGAACCTGTCCAACACGAAAAATACGAGGTGGGGTGGGGAGATC
GGAAGCAGTGACCCATTCTACACGGCCGGG--------CACACGTATGCGCATGCATGTGTGTGCACCTACCACCTACGT
GCACCTACCCCCTCTCACGGTCTCACCTCTATATAAATCGAGACACACCATGCAAATCAACCCATCTCCATTC--AGCAG
AAACAAACCAAA--------------------------------------------------------------------
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----------------------CCAAGCTC-------------TCACAAGCTCCGCTGAACCTCGGAACCTGAAGCTACT
GAACACGAAGCAAGCAAGGCAATCGTTCTCCCCC------CTA--GATCAGAACCTGCTGT----CTCCCGTCTGCACA-
--GTAACAACAGCGATGGCGGCGACCGCGGCGGCGTTGATGAGGATGGTGCTGCTGGTGGTGCTCTTGGTGCAGATGCTC
AGCGTCATGGCC---GTCTCGGCGAGGACGTTGAAGGGGGACGCCT---GGCTCACGGACGGCATCGGGATGGTGATGGA
GATGTTCGGCGACCTGAAATCAGGGTCCAGCCCTCCCACGCACTGCTGCTAAGCGAACCGATCAAGCA------------
--------GACAGTTTTTCTTCGGTTAGAAGATGTAAAGATGCGAGGCTCTCTTTTTCT----TTTTGCCTCTTTGTTGT
AGAGGAGTATATATAGATAGGATCATTCTTTCGTTGTAGAGA-TCAACTGGCCATTCAACAAAGGTCTAACTGTAACTAT
GTTACTATTTGAGTAC-AAAATTTGTTCATTCTTTCAAGCAA-TCGGTGGCAG--TGTGTATGGATTGTCTCTGGCCTTA
AATGTTTCGACTGATTTCAAAGAATGG-----------------------------------------------------
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>chr2B_33
AAG--------------------------------GGAGAATTCGTGCAAGACTGGTTCATGGTCTCTCCAACACGCCGG
TCTGAATCGATCAGCGCACGATCATGCTACACCCCGGCTCTTGAACCGTTCCAGCTTGTTCGACAAGTAGAACCGTATAA
--TACTAGTACGTACTAGCACTAGCAGGCTAGGCTAGCAGCAGAGGAAGAGTCGCAGAAACCTGCACTAACGTAAAGGAA
TGCGTGCTTTTGGATTCTGAATTCGTTCGGGTCAAAAGCAAGAACACG----AATATTATTTGTTCAACGAGAAGCTGAA
ATTCCTCGTGTTGGTGTACAT-GGGTTGGTCCTGGTCGCGAAAGGGGGGAGGCAGGGAGAACTTGCATACAGACACGCAT
CGTCCTTGTTTATGTCGCCAACATGAACAATGAACAATCTATCGTGTTCACTGTCGTACTACTACTGCTACTTAGTCAAG
AAATACTGTGGCTCCGGTGGACCAAAAGGAGTA--------------TTATAGAGTTCGAGTCAGAAAGGATT-------
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--------------TATCTGTTGGTAGCTCTTGCCATGCATGGGCGGGTTGAGGTAAACGAACTGATGTCTTGTCCATGA
GAAAGATTGACCGTACAGTGTTGACGTCATCAAAGACCAAGACTACTCGTCGGTTGCTTTAGGTAAATCAACGGTGCTGA
ACGGT------------GTCCAAAGGTCAAAGGGCCGGAACCTGTCCAACACGAAAAATACGAGGCGGGGTTGGGAGATC
GGAAGCAGTGACCCATTCTACACGGTCGCGCAAAGCAACACACGTATNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNCCAAGCTC-------------TCACAAGCCCTGCTGAACCTCGGAACCTGAAGCTACT
GAACACGAAGCAAGCAAGGCAATCGTTCTCCCCC------CTA--GATCAGAACCTGCTGT----CTCCCGTCTGCACT-
--GCAACAACAGCGATGGCGGCGACCGCGACGACGTTGATGAGGATGGTGCTGCTGGTGGTGCTCTTGGTGCAGATGCTC
AACGTCATGACC---GTCTCGGCGAGGACGTTGAAGGGGGACGCCT---GGCTCAAGGACGGCATCGGGATGGTGATGGA
GATGCTCGGCGACCTGAAATCAGGCTCCAGCCCTCCCACGCACTGCTGCTAATCGAACCGATCAAGCA------------
--------GACAGTTTTCCTTCGGTTAGAAGATGTAAAGATGCGAGGCGCTCTTTTCCTTTTCTTTTGCCTCTTTGCTGT
AGAGGGGTATAGATAGATAGGATCATTCTTTCGTTGTAGACA-TCAACTGGCCATTCAACAAAGGTCTAACTGTAACTAT
GT---TATTTGAGCAC-AAAATATGTTCATTCTTCCAAGCAAATCGGTGGCAGTGTGTGTATGAATTGTCTCTGGTCTTA
AATGTTTCGACCGATTTCA-------------------------------------------------------------
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>chr1B_184
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--------------------------------GCAAGCATCAGAGGAAGAGTCGCAGAAACCTGCACTAACGTAAAGGAA
TGCATGCTTTTGAACCCTGAATTCA----GGTCAAACGCAACAACACGTACGAATGTTGTTTGTTCGACAGGAA------
-----------------ACAT-GTGCTGGTCCTGGTCGTAG---------------------------------------
CGTCCTTGTTAATGTAGCGAACGGGAACGGTTCATCCATCACTTGCCG--------------------TACTTAGTCAAG
AAATAGCTCTTCTGAACTGGACCAAATGTATCCTGTG-----------TATAGAATTCGAATCAGAATACATA-------
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--------------TACAAGAGAAAGATTGTTAACCGA---------------------------------TGTCCATGA
GAAAGATTGACCGTGCAGTGTGGACGTCATCT-------AGACTACTGGTCAGTTGTTGTAGGCAAATCAACGGTGCTT-
---------AGGTCTCCGTCCAATGGTCAAAGGGTTGGAACGCCAAAAGTAGGA--------------GGTGGGGAGATC
GGAAGCAGTCACCCATTCTACACGGCCGGG--------C-----------------------------------------
-----------------------------TATATAAACCGAGACCCATCGTGCAAATCTACCCATCTCCATTTCTAGCAG
AAACGA--------------------------------------------------------------------------
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--------------------------------------AGCAGCAACAAGACCTGCTGGAGCTCGTAACCTG-AGCTACT
AAGCACGAAGCAAGGCAATCCTT-----TCCATC------CTA--GATCAAAATCTGCTGTACGTCTCCCGTCTGCAGCA
GCGCAACGACAGCGATGGCGGCG------------TTGATGAAGACGTTGCTGCTGGTCGTCTTCTTGGTGCACATGTTC
AACGTCATTGCGCCTGTCTCGGCGAGGGCGTTGAAGGGCGACGCCTCCTGGCTCAAGGACGGCATCGGGATGGTGGTGGA
GATGCTCGGCGACCTGAAATCAGGGTCCAGCCCTCCCACGCACTGCTGCTA-GCTAATTGATCAAGCAACACCATGCAAT
CACCTCCTCACAGTTTTTCTTCGGTTACAAGATGTAAAGATGCGAGGCTCTG------TTTTCTTTTGCCTCTTTGCTGT
ACAGGTC----TATAGCTAGGATCATTCTTTCGTTTTAGAGAATCAACTGGCTATTCAAGGAAGGTCTAACCTTAACCAT
GT---CTTTTGAATAC-AAAATTTGTTCGTGCTTTCAAGCAA-TC-----------------------------------
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>chr1D_888
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-----------------------------------------------AAGCCCTGCTGAAGCTCGGAATCTGAAGCTACT
GAGCACGAAGCAAGGCAATCCTT-----TCCATC------CTATAGATCAAAATCTGCTGTACGTCTCCCGTCTGCAGCA
GCGCAACAACAGCGATGGCGGCG------------TTGATCAGGATGGTGCTGCTGGTCGTGTTCTTGGTGTACATGTTC
AGCGTTATGGCGCCTGCCTCAGCGAGGACGTTGAAGGGCGACGCCTCCTGGCTCAGCGACGGCATCGGGATGGTGGTGGA
GATGCTCGGCGACCTCAAATCAGGGTCCAGCCCTCCCACGCACTGCTGCTA-GCTAATTGATCAAGCAACACCATGCAAT
CACCTCCTCACAGTTTTTCTTCGGTTAGAAGATGTAAAGACGCGAGGCTCTG------TTTTCTTTTGACTCTTTGCTGT
ACAGGTC----TA-AGCTAGGATCATTCTTTCGTTTTAGAGA-TCAACTGGCCATTCGACAAAGGTCTAACCTTAACCAT
GT---CTTTTGAATACGAAAATTTGTCCATTCTTTCAAGCAA-TC-----------------------------------
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>SNPs
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS---------------------------------------------
-------------------------------------------------------------------------------S
SS----------------------------------------------------S-------------------------
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------------SS-------S--S---------------------S---------------------------------
---------------S----------------------------------------------------------------
-----------------------S--------------------------------------------------------
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-----------------------------------------------------------------------S--------
------------S--------------------------S----------------------------------------
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--------------------------S-SSSSSSSSSS--S-----S--------------------------------S
------S-----------SS---------S-S--SSSSSS----------------S-----------------------
----S-----------------------------S--------------------------------------------S
-----------------------------S----------S---------------------------------------
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------------------------------------------------------S------S------------------
----------------------------------------------S--S----S-------------------------
S--------------------SSSSS-SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
>forward_1440
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------------------------------------------------------------CCTCGGAACCTGAAGCTACG
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>reverse_2733
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------------ATAATGGGGCAAGGCTTCCC------------
