>input_sequence_72512
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--------------------------------------------------------ATGGCCAAGAAGAAGTTTAAGCAT
CGCCCGCCCGCGGACATCATATCCTACAATACTCTCCTCGCTGGGTTCTCTGAGCAGGACGATGCCGAGGAGTTTGAGAA
GCTGCTCAAGGAAATCAATGAGAACAAGCTGGAGCCAAACGTCGTCACGTACAATTGCCGGATGCGGTGGTTTGCAAGGA
AGGGGGAAACCTTCAAGGGCGAGGAGCTGCTCGATGTGATGGAGTCAAAAGGCGTGCTGCCCAATTACGTTACTTACAAT
GCGCTTGTGCAGGGGTACTGCAAGGAGGGGAATGTCGGGGCCGCCATGCGAGTATTCAAGAGGATGAAGGTGATGAAGAG
GCGGGAGGGGAGGAGTGACTTGGGAGTGTCGGTGCACTCGCAGACATATGTCCTGCTGTTTAAGAGTTTGGTCGAGAAGG
AAAGGCTTGATGATGCACTGTGGCTTTGTAACAGCTGCTTTGCAATGAAGGCAGCCCCATCATTTGAGGCTGTCAAGGGT
TTAGTCGAGGGGTTGGTGAAGGGAGGGAGGTCTGCAGAGGCGAAGGGTGTTGTTGCCAAGATGAACTTTCTTGTGAAAGG
GGATGCTAAAGTTGCTTGGGAGAAGATTGCTGGTGAATTATCTCTTGAAGAGGGAGCACCAAGTTCAGATCCATGA----
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>chr1A_1_TraesCS1A01G160400
TGTGATTCATGCACGGAATGAAACGGATCGTCGGCTGTCAAAACATCTGAAATTCATAACCCCACTGCTCAGATTTAAAA
CAACGACGATCAATCTAATACGGTTCTTATTTAAGTTCAATTTTAGTTTTTTTAAAAACAATTTCAGGTTAACCAAAATG
GTAGTATGAGGCCTTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAACCCGGACC
GCGTCCACTCCCTCGTCGCCTCCGCGCTCTCCAGCCCCGACTA-------------------------------------
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-----------------------------------------------------------CCACCGCCTCCACACCTCGCG
TGACCTCTTCTCCCTCGCCGCCTCCCGCCTCGACCGCCTGCACCGCCCCGACCTCGCCGCCTCCCTCCTCGACCAGCTCC
TCGCCTCCGCCCCGGTCACCCCCGGCCTCCTCGCGCGCGCCCTCTCCCTCTTCCCGGGCCCGGACGACGCCGTCCGTGCC
TTCTCCTCCTCCGCCCCCGCCGCCCGCTCCGATGTCTCCCTCTCCGCCCTCCTCTCCGCGCTTCTCCGCGCGGGCCGCAT
CGACGACCTCAAGTCAACCTTCAAATCCGCCGAGTCCTCGCTCGGCGTCGCCCCTGGCCGCGCCTCCCACAACGTGCTCC
TCCACGCTCTGGTCAAGAGCTCTGAGCTCCCCGCCGCCCGCAAGCTGCTCAATGAAATGGCCAAGAAGAAGTTTAAGCAT
CGCCCGCCCGCGGACATCATATCCTACAATACTCTCCTCGCTGGGTTCTCTGAGCAGGACGATGCCGAGGAGTTTGAGAA
GCTGCTCAAGGAAATCAATGAGAACAAGCTGGAGCCAAACGTCGTCACGTACAATTGCCGGATGCGGTGGTTTGCAAGGA
AGGGGGAAACCTTCAAGGGCGAGGAGCTGCTCGATGTGATGGAGTCAAAAGGCGTGCTGCCCAATTACGTTACTTACAAT
GCGCTTGTGCAGGGGTACTGCAAGGAGGGGAATGTCGGGGCCGCCATGCGAGTATTCAAGAGGATGAAGGTGATGAAGAG
GCGGGAGGGGAGGAGTGACTTGGGAGTGTCGGTGCACTCGCAGACATATGTCCTGCTGTTTAAGAGTTTGGTCGAGAAGG
AAAGGCTTGATGATGCACTGTGGCTTTGTAACAGCTGCTTTGCAATGAAGGCAGCCCCATCATTTGAGGCTGTCAAGGGT
TTAGTCGAGGGGTTGGTGAAGGGAGGGAGGTCTGCAGAGGCGAAGGGTGTTGTTGCCAAGATGAACTTTCTTGTGAAAGG
GGATGCTAAAGTTGCTTGGGAGAAGATTGCTGGTGAATTATCTCTTGAAGAGGGAGCACCAAGTTCAGATCCATGATTTG
TTGGAGGCATGCAAGTCAGTTCTGATTTATTCAAGTGTTTTGGCCTTTGAATAACGTTGATGAAGAAGAAGGGCATTCAC
ATGGGTTCTAGTATTGTCTTCATGTTATCATGGGCCTATCTTTCAAGGTCCAATAGTTAGATCAGAGTGTAATGTCTCTA
TAAGGCAGAATGGTCAGCGCCATTTCATAATCCCTTTTCTGTAGGAGCTTCTTCTATTTTGTTGCCTTTTGGTAATACTT
AAAAAGATATTACATTTGTTGAAGTGCTAAGGGAATCATGATACTATCTACTATC-TATCACTGTAACCGTTTGTTTAGT
GTAATTCAGAATAGTTTTATGATAATGGTATGTTTCAAGCCTCAGTTGTTCTGCTTCGTTTTCCTTCTGAGAGGAAGGTA
GTTGTACCAGTACTAGTTTGGTCATGCACTTGTACATTGTACAACCAGCACAGATT-AAAAAAAAATCACAGCTTATACA
GTCTTGGGAACAAACTCGAGTAACTGACATTGTTTGATAATTGATAGCATAAAGCATAAAATTACAAAGTACTGAGTATG
TAGTGAACAGAAATCATCAAGACGCTATGCTTATGATATTCTTACAGTATATAATTATAGTCGCGAATTGCTATCCTTAC
ACTGTATAATTATAATTGTGAAATGCTACCGTGCCATGTAAAGCTTGTTTGTGACCTTTCCATATATCTGGTAGTAACCT
ACTTGGATCTCCTTCAATTTCAGTTAATGCCCCGAACTAGCAGTCCTTCAAATGTGATGCCTGGGCCAAAAGCCAAGATC
AATCCCCACTCTTCCCTTATTGCCCCTTTCTTCAATTCATCCCTCAAATACTCCAGCACATAGAAGACTGTGTTACTGCT
CACATTCCCATAGTTCATCAGGGCCTTTCTACTGATCTTGAGTTTATCTGGCTCAAGTTGAAGACAAACCTCCAGCCTGT
TCAATATTGCTGGTCCACCGGGATGCACAGCCCAAAAT
>chr1D_3
--TGATTTATGCGCGAAATGGAACGGATCGTCGGCTGTCAAAACATCTGAAATTCATAACCCTGCTGCTCGGATTTAAAA
CAACGACGATCAATCTAATACGGTTCTTATTTAAGTTCAATTTTAGGTTTTTTTAAAACAATTTCAGGTTAACCAAAATG
GT---ATGAGGCCTTCATAGTTTTTTTTTGGGTGAAATGGACTAGTGCTGCAGGCAGACTGTAGAGCAGTTGTGCAAGCT
TCCGCAGCAGAAAGGGGAAGTCCCCTCAAACGCAAGGCCCAAACCCTCGCAAACCCCGTGCTCACTCACCAATCACCATG
GCGTCCCTCCTG--------------------------------------------------------------------
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-------------------------------------------------------------------------------C
GCCGCCGCCACCCCCACCCCTCCGCCGTCTCCGCCCACCTCCTCCGCCGCCTCTNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCCACCGCCTCCACACCTCGCG
CGACCTCTTCTCCCTCGCCGCCTCCCGCCTCGACCGCCTCCACCGCCCCGACCTCGCCGCCTCCCTCCTCGACCAGCTCC
TCGCCTCCGCCCCGGTCTCCCCCGGCCTCCTCGCGCGCGCCCTCTCCCTCTTCCCGGGCCCGGACGACGCCGTCCGTGCC
TTCTCCTCCTCCGCCCCCGCCGCCCGCTCCGATGTCTCACTCTCCGCCCTCCTCTCCGCGCTTCTACGCGCGGGCCGCAT
CGACGACCTCAAGTCAACCTTCAAATCCGCCGAGTCCTCGCTCGGCGTCGCCCCTGGCCGCGCCTCCCACAACGTGCTCC
TCCACGCTCTGGTCAAGAGCTCTGAGCTACCCGCTGCCCGCAAGCTGCTCAACGAAATGGCCAAGAAGAAGTTTAAGCAT
CGCCCGCCCGCGGACATCATATCCTACAATACTCTCCTCGCTGGGTTCTCCGAGCAGGACGATGCCGAGGAGTTTGAGAA
GCTGCTCAAGGAAATCAATGAGAACAAGCTGGAGCCTAATGTCGTCACATACAATTGCCGGATGCGGTGGTTTGCAAGGA
AGGGGGAAACCTTCAAGGGCGAGGAGCTGCTCGATGTGATGGAGTCAAAAGGCGTGCTGCCCAATTACGTTACTTACAAT
GCGCTTGTGCAGGGGTACTGCAAGGAGGGGAATGCCGGGGCCGCCATGCGAGTATTCAAGAGGATGAAGGTGATGAAGAG
GCGGGAGGGGAGGAGTGACTTGGGAGTGTCGGTGCACTCGCAGACATATGTCCTGCTGTTTAAGAGTTTGGTAGAGAAGG
AAAGGCTTGATGATGCACTGTGGCTTTGTAACAGCTGCTTTGCAATGAAGGCAGCCCCATCATTTGAGGCTGTCAAGGGT
TTAGTCGAGGGGTTGGTCAAGGGAGGGAGGTCTGCAGAGGCCAAGGGTGTTGTTGCTAAGATGAGCTTTCTTGTGAAAGG
GGATGCTAAAGTTGCTTGGGAGAAGATTGCTGGTGAATTATCTCTTGAAGAGGGAGCACCAAGTTCAGATCCATGATTTG
TTGGAGGCATGCAAGTCAGTTCTGATTTATTCAAGTGTTTTGGCCTTTGAATAACGTTGATGAAGAAGAAGGGCATTCAC
ATGGGTTCTAGTATTGTCTTCATGTTATCATGGGCCTATCTTTCAAGGTCCAATAGTTAGATCAGAGTGTAATGTCTCTA
TAAGGCAGAATGGTCAGTGCCATTTCATAATCCCTTTTCTGCAAGAGCTTCTTCTATTTTGTTGCCTTTTGGCAATACTT
AAAAAGATATTACATTTGTTAAAGTGCTAAGGGGATCTTGATACTATCTACTATC-TATCACTGTAACCGTTTGTTTAGT
ATAATTCAGAATAGTTTTAT-ATAATGGTATGTTTCAAGCCTCAGTTGTTCTGCTTCTTTTTCCTTCTGAGAGGAAGGTA
GT---ACCAGTATTAGTTTGCTCATACACTTGTACATTGTACAACCAGCACAGATT-AAAAAAATA--ACAGCTTATACA
GTCTTGGGAACAAACTCGAGTAACTGACATTGTTTGATAATTGATAGCATAAAGCATAAAATTACAAAGTGCTGAGTATG
TAGTGAACAGAAATCATCAAGACGCTATGCTTATGATATTCTTACAGTATATAATTATAGCCGCGAATTGCTATCCTTAC
ACTGTATAATTATAATTGTGAAATGCTACTGTGCCATATAAAGCTTGTTTTTGATCTTTCCATGTATCTGGTAGTAACCT
ACTTGGATCTCCTTCAATTTCAGTTAATGCCCCGAACTAGCATTCCTTCAAATGTGATGCCTGGGCCAAAAGCCAAGATC
AATCCCCACTCTTCCCTTATTGCCCCTTTCTTCAATTCATCCCTCAAATACTCCAGCACATAGAAGACTGTGTTGCTGCT
CACATTCCCATAGTTCATCAGGGCCTTTCTACTGATCTTGAGTTTATCTGGCTCAAGTTCAAGACAAACCTCCAGCCTGT
TCAATATTGCTGGTCCGCCGGGATGCACAGCCCAAAAT
>chr1B_552
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-----------------------------------------------------------------------ACCCGGACC
GCGTCCACTCCCTCGTCGCCTCCGCGCTCTCCAGCCCCGACTA-------------------------------------
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-----------------------------------------------------------CCACCGTCTCCACACCTCGCG
CGACCTCTTCTCCCTCGCCGCCTCCCGCCTCGACCGCCTCCACCGCCCCGACCTCGCCGCCTCCCTCCTCGACCAGCTCC
TCGCCTCCGCCCCGGTCTCCCCCGGCCTCCTCGCTCGCGCCCTCTCCCTTTTCCCGGGCCCGGACGACGCCGTCCGCGCC
TTCTCCTCCTCCGCCCCCGCCGCCCGCTCCGATGTCTCCCTCTCCGCCCTCCTCTCCGCGCTTCTACGCGCGGGGCGCAT
CGACGACCTCAAGTCAACCTTCAAATCCGCCGAGTCCTCTCTCGGCGTCGCCCCTGGCTGCGCCTCCCACAACGTGCTCC
TCCACGCTCTGGTCAAGAGCTCTGAGCTCCCGGCCGCCCGCAAGCTGCTCAACGAAATGGCCAAGAAGAAGTTTAAGCAT
CGCCCGCCCCCGGACATCATATCCTACAATACTCTCCTCGCTGGGTTCTCTGAGCAGGACGATGCCGAGGAGTTTGAGAA
GCTGCTCAAGGAAATCAATGAGAACAAGCTGGAGCCTAATGTCGTCACGTACAATTGCCGGATGCGTTGGTTTGCAAGGA
AGGGGGAAACCTTCAAGGGCGAGGAGCTGCTCGATGTGATGGAGTCAAAAGGCGTGCTGCCCAATTACGTTACTTACAAT
GCGCTTGTGCAGGGCTACTGCAAGGAGGGGAATGTCGGGGCCGCCATGCGAGTATTCAAGAGGATGAAGGTGATGAAGAG
GCGGGAAGGGAGGAGTGACTTGGGAGTGTCGGTGCACTCCCAGACATATGTCCTGCTGTTTAAGAGTTTGGTAGAGAAGG
AAAGGCTTGATGATGCACTGTGGCTTTGTAACAGCTGCTTTGCAATGAAGGCAGCCCCATCATTTGAGGCTGTCAAGGGT
TTAGTCGAGGGGTTGGTCAAGGGAGGGAGGTCTGCAGAGGCGAAGGGTGTTGTTGCCAAGATGAACTTTCTTGTGAAAGG
GGATGCTAAAGTTGCTTGGGAGAAGATTGCTGGTGAGTTATCTCTTGAAGAGGGAGCACCAAGTTCAGATCCATGATTTG
TTGGAGGCATGCAAGTCAGTTCTGATTTATTCAAGTGTTTTGGCCTTTGAATAACGTTGATGAACAAGAAGGGCATTCAC
ATGGGTTCTAGTATTGTCTTCATG--------GGCCTATCTTTCAAGGTCCAATAGTTAGATCAGAGTGTAATGTCTCTA
TAAGGCAGAATGGTCAGTGCCATTTCGTAATCCCTTTTCTGTAAGAGCTTCTTCTATTTTGTTGCCTTTTGGTAATACTT
AAAAAGATATTACATT-GTTGAAGTGCTAAGGGGATCATGATACTATCTACTATCCTATCACTGTAACCGTTTGCTTAGT
ATAATTCAGAATAGTTTTATGATAATGGTATGTTTCAAGCCTCAGTTGTTCTGCTTCTTTTTCCTTCTGAGAGGAAGGTA
GTTGTACCAGTATTAGTTTGCTCATGCACTTGTACATTGTATAACCAGCACAGATTAAAAAAAAAATCACAGCTTATACA
GTCTTGGGAACAAACTTGAGTAACCGACATTGTTTCATAATTGATAGCATAAAGCATAAAATTACAAAGTACTGAGTATG
TAGTGAACAGAAATCATCAAGACGCTATGCTTATGATATTCTTAGAGTATATAATTATAGTCGCGAAGTGCTATCCTTAC
ACTGTATAATTATAATTGTGAAATGCTACTGTGCCATGTAAAGCTTGTTTGTGATCTTTCCATGTATCTGGTAGTAACCT
ACTTGGATCTCCTTCGATTTCAGTTAGTGCCCCGAACTAGCATTCCTTCAAATGTGATGCCTGGGCCAAAAGCCAAGATC
AATCCCCACTCTTCCCTTATTGCCCCTTTCTTCAATTCATCCCTCAAATACTCCAGCACATAGAAGACTGTGTTGCTGCT
CACATTCCCATAGTTCATCAGGGCCTTTCTACTGATCTTGAGTTTACCTGGCTCAAGTTCAAGACAAACCTCCAGCCTGT
TCAATATTGCTGGTCCACCAGGATGCACAGCCCAAAAT
>SNPs
SS-----S----S--S----S-----------------------------------------SS------S---------
----------------------------------------------S------S--------------------------
--SSS----------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS---------
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S--------------------------------------S----------------------------------------
-----------------S--------------------------------------------------------------
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----------------------------------------------------S---------------------------
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------------------------------------S--S----------------------------------------
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------------------------------------------------------------------------S-------
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-----------------S--------------------------------------------------------------
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-----------------S-------------------------S------------------------------------
---------------------------------S----------------------------------------------
S--------------------------------------------------------S----------------------
------------S-------S-----------------------------------------------------------
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-----------------------------S------------------------S--------S----------------
------------------------------------------S-------------------------------------
--------------------------------------------------------------------------S-----
-----------------------------------------------------------S--------------------
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>forward_1266
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------------------------------------------------CTCCTCTCCGCGCTTCTC--------------
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>reverse_3020
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-----------------------------------------------------------GAAGACAAACCTCCAGCCTGT
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