>input_sequence_81077
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-----------------------------------------------------------------------ATGGCGTAC
AGCCTGAAGATGGCCTGTGTCGCCATCGCTCTCGCCGCCACCGCGCTCCTCTTCACCATCCCACGATCTCAAGGTATAAC
ACGCGTAGCGGCTCGACATGCGCGCGAGCAAATATTTGCATTTTTTCTGTTGCGATCGCTGATTGTTTTTTCTGCCGTGA
TTGATGACCAGCATGGGATGCGGACATGGTGCCGGTGGGGGCGCCGGAGCACGCGTTGACGGCGATCCCGGGCGGCGGCG
CAGGGACGTTGGCAGCGGGGGCGCCGGTGTGCCTCCAGTGCCGGTGCTGCTCCAGGTCGAACTCGGGCAGCTGCCAGATC
ACCAGCTGCTGCTCCACCTTCAACTGCGACCCCACCGGCAAGTGCAACGTCGTGCAACAGAAGTGCGGCTGCAACGGCTG
CTAA----------------------------------------------------------------------------
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>chr2A_1_TraesCS2A01G213300
TTTCAAAAATATATTTGACATTTCAAAAATATTATACAATGTAAAAACATTGTTCATGTAATCAA-TTTTCCCCTACCTT
TCAAACAAATTTATGTTATTACATTTGAAATAATGTTCATGATTTTAAAAAATATG-TCTTGATATTTTATAAAATATTT
GCACAATGTAAAAAATGTTCCCATTGTTCTAAGAAATAGTTTTGTAACATTCAAAAATTGTTTCAACATGTATTTAAAAC
ATGTTTAACACATATTTGG-AA---AAATGTTCAAAATACGTAAAATCTTGATCATGTATTTCAAAAACATTAAACATGT
AATTATTTTAG--GTGCACTAAA-AATTATAGTGTTTATGAGATAAAATAGACATCAAAACATATATTATAAAAATGTTA
AATTTTATGAAATAATGTGTTTGAGTACTTTTTGGACCAGAAGACACCTAGGAAACTAACAGCGA-GGGCAAATTTAGGA
CAGTA---------------------------------------------------------------------------
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-------------------------TGACTGTCAGACCAACGGATGAAGGATGGCAACATCTGATTAATCAGATGAGCAA
TTCAAGATAGGCACAAAAAGGATTTGATTTAGCAATAACTTAATCCA-CATTTAAACTTGGCCAAAGAAGTAAGTACTTC
AGAGTATAGTAGTCTTTAATGATTTTTTGATGACCCAACTCGGTGGCATTTAATCAAGAGCTTGCTTCTCTTCTGTCATC
CCTTCTCCCTCCTTAAACTAAGTAAAGATATAATACTTTAGTTTTTATAGTCTGCTTATATCACCTTATTGTACTTACTC
TTATTCGGTTTGATCTCAGGAATGAATTCAATGCAAATAAAAGGTCCAAAACTGATCGAAACAAATTAATGCTGGCCTTG
GTTTCTCTCCTCGAAACGAATTAATCCTCATGTATTTATATCCTTATTACCAAGGCACAACGTCATAGCAGATCGATCAC
AGCAAACGATTCCTCCGTCTGTCTCCCCGGAAACGTTCGATCCTCTCGGCCATCCTCAGGGACAGTTAGCAATGGCGTAC
AGCCTGAAGATGGCCTGTGTCGCCATCGCTCTCGCCGCCACCGCGCTCCTCTTCACCATCCCACGATCTCAAGGTATAAC
ACGCGTAGCGGCTCGACATGCGCGCGAGCAAATATTTGCATTTTTTCTGTTGCGATCGCTGATTGTTTTTTCTGCCGTGA
TTGATGACCAGCATGGGATGCGGACATGGTGCCGGTGGGGGCGCCGGAGCACGCGTTGACGGCGATCCCGGGCGGCGGCG
CAGGGACGTTGGCAGCGGGGGCGCCGGTGTGCCTCCAGTGCCGGTGCTGCTCCAGGTCGAACTCGGGCAGCTGCCAGATC
ACCAGCTGCTGCTCCACCTTCAACTGCGACCCCACCGGCAAGTGCAACGTCGTGCAACAGAAGTGCGGCTGCAACGGCTG
CTAACCGGCCGGTCATCACCGTGCTAGCTGCCTCCGTGCCAATTTTTTCTATGGAGGAGCCAAATGTTTTCTTTGAAAAA
TAAAATCTCCCGTCTATTTTGTGTACTGCCAAATGAAATTGTTCCATCGTCGTGTTCGCGGGCCACAAATGCAGAGATAT
TACTATGTTATTACTGGGCCTAATAGAGGCCCACTATGTTAT---TGCAAGAAGGGGCAATTAAATTAGGCCACATTCTT
CAGCCCGTGAAGTCTGTTGAAACCTCCCCGTGAATTTAGTATTATCGTTTTCAAACTCGCTTTAAAAAGGGCGGATTTTG
ATTTTTTTTTGCCACGATTTACTTCACACTTTGACAATTAGCCACTCGTTACTTTGTGTTTGCTTATTTGCCACTGGTTA
GTTTGGACTTGGATGTTTTGCCCCTGTCACGAGGGACCCGTGTGGAAATCACCAGATTGCCCATGCCCGTCCAATTCACC
AAGGAGATGAGCTCGTCTCCTCGCTCGTTCCCAATCCGTCTCTTGTCCGTCGCTACTGGTCCTCGACGGAAGACGGCGGC
GGCTCGTCCCGGCGGTTCCCCGTGGTCCTCGCGTGCTTGTCATGATGCAGGTGATGCTGTTTGCCACCGCCGGTCCCGCA
TGCTCGTGCATTGCCGTCGCTCTGTTATGCCGCCGCTGCTTCTTCATGCCTTCCCGTACTATTGCTGCTGTTCGTGGCCG
GCCCATACTGCTGCTGTTGTTCGTGGCCATGTGTGCTACTGCTGCTTACTGGTGGTCGGCGGAAGGCGCGGTGGAGGCGC
TCGCTGCTGCCTGACTCCACTTGGGCGCCGTCGTGTTCGGCCTTAGCGTGTACGTACATGGGCGCCGCCGTCTTTGCTGC
TGCTCCCCACCACTGCATGTTGCTGCTGCCTATCGGCTAGCTCGAGCCGGCATGCCCGCTGCGTGTAGAGGAGCGTCGCC
GTCGACTGCCGTGCGAACATGGGATGAGGATTGAGTTCGTCCCGTGC
>chr2B_1
TTTCAAAAATACACTTGACATTTCAAAAAAA-TATACACTGTAAAAATATTGTTCAGGTAATCAATTTTTCCCCTTCCTT
TCAAACAAATGTATGTTATTACATTTGAAATAATGTTCATGAGTTTCAAAAATATTTTCTTGAACTTTTATGAAATATTT
ACACAATGTAAAAAATGTTCCCATAGTTTTAAGAAATGGTTTTGTAACATTCAAAAAAAATGTCAACCTGTATATGAAAA
ATGTTTAACACATATTTGGAAAAAAAAATGTTCAAAATACATACAATCCTTTTCATGTATTTCAAAAACATTAAACATGG
AATTATTTTATATGCGCACTAAAAATTTATAAT-TTTATGAAATAAAATAGATATCAAAACATATATTATAAAGATGTTA
AATTTTATGAAATAATGTATTTGAGTACTTTTTGGACCAGAAGACAACTAGGAAATTAACAGTGGGCGGCATATTTAGGA
CAGTA---------------------------------------------------------------------------
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-------------------------TGACTGTCAGAGCGACGGATGACGGATGACGGAATCTGATTAACCAGGTGGGCAA
TTAAAGATAAGCACGAAAAGGATTTTATTTAGCAATAACTTAATCCGGCATTTAAACTTGGCGAAAGAAA----TACTCC
AGAGTACAGTAGTCTTTAATGATTTTTTGGTAAA--AACTCGGTCGCTTGG-----------------------------
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TTATTCGGTTTGATCTCAGGAATGAATTCAATGGAAATAAAAGGTCCAAAACTGATCGAAGCAAATTAATGCTGGCCTT-
-----------CGAAACGAATTAATCGTCGTGTATTTATATCCTTATTACCTAGACGCAACGTCATAGCAGATCGACCAC
AGCAAACGATTCCTCCGTCTGTCTCCCGGGAA-CGCTCGATCCTCTCGGCCATCCTCAGGGACAGTTAGCAATGGCGTAC
AGCCTGAAGATGACCTGTATCGCCATCGCTCTCGCCGCCACCGCGCTCCTCTTCACCATCCCACGAGCTCAAGGTATAAC
ACGCGTAGCGGCTCGTCATATGCGCGAGCAAATATTGAGCC--TTTCTGTTGTGATCGCTGATTGTTTTT-CTGCCGTGA
CTGGTGACCAGCATGGGATGCGGACATGGTGCCGGTGGGGGCGCCGGATCATGCGCTGACGGCGATCCCGGGCGGCGGCG
CGGGGACGTTGGCAGCGGGGGCGCCGGTGTGCCTCCAGTGCCGGTGCTGCTCCAGGTCGAACCCGGGCAGCTGCCAGATC
ACCAGCTGCTGCTCCACCTTCAACTGCGACCCCACCGGCAAGTGCAGCGTCGTGCAACAGAAGTGCGGCTGCAACGGCTG
CTAACCGGCCGGTCATCACCGTGCTAGCTGCCTCCGTGCCAATTTTTTCTGTGGAGGAGCCAAATGTTTTCTTTGAAAAT
G----TCTCCCGTCTATTTT------------------------------------------------------------
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>chr2D_6
-----AAAATATATTTGATATTTTAAAGAAA-TATACAATGTAAAAACATTGTTCATGTAATCAATTTTGTC----CCTT
TCAAACAAATTTATGTTATTATATTTGAAATAATGTTCACGAGTTTAAAAAGTATG-TCTTGACATTTTATAAAATGTTT
TCACAATGTAAAAAATGTTCCCATAGTTCTAAGAAATAGTTTTGTAACATCCAAAAAATGTTTCAACATGTATTTGAAAA
ATGTTTAACACATATTTGGAAA---AAATGTTCAAAATACGTAAAATCTTGATCATGTATTTCAAAAACATTAAACATGT
AATTATTTTAGATGTGCACTAAACAATTATAATGTTTATGAGATAAAATAGACATCAAAACATATATTATAAAAATGTTA
AATTTTATGACATAATGTGTTTGAGTACTTTTTGGACCAGAAGACACCTAGGAAACTAACGAT-GGGGGCAAATTTAGGA
CAGTACTAGCAGGCGAAGGCGTGGTGGCACGCCGCGCCCGTTGTGAAGCCCGTGTGCCTGACTGCGTTGTTTTTTCTTAT
AGAAGAAAAGAATGCAGTGGGCAAGCGAGCTAGCAGTCGGTAATGTGCAAGCTAATTTAATTTAGATAAATATCGAAAGA
TACCAAAAATCAATTCACCCATGGTTACAAACACTTTGGAGTCCTCAGCCGCCGCCGCTCATAGCCTTCACCTCCGCTAC
TAACTCCCCCGTCGTCCTCGTCGGAGGCCGTCGGGATAAGCCCTGGAGTCGCCGTCTCCTCTCTCCGGTAGGCTTGTGCT
GACCCTTCGGCAACTTTTCACACTTGTCGCTGCCAAGGGGAGGCCTTGGATGGATCCGACGTGGATACTGTGGCTAGGCG
GGTGGTGGCGCCATAGACTGATCTACCTTGCTCATGATCTGGTCATGTCGGCCCCTTGGCGAACAGGGTCTGGGCAGGGC
TAGCTCCGGTTAGATGGCAGACCGTGGTGATGTGCTCTATCATCGGTGTTGGTCCATATGGTGATCACTTCGGCATGCGG
CAGCGGCCTCGCTGTGGGGACAATATGACTGTCAGACCAACGGATGACGGATGACAGCATCTGACTAACCAGGTGGGCAA
TTAAAGATAAGCACGAAAAGGATTTTATTTAGCAATAACTTAATTTGGCATTTAAACTTGGCCAAAGAAATAAGTACTCC
AGCGTATAGTAGTCTTTAATGAGTTTTTGATAAA--AACTCGGTGGCATTTAATTCCATTCTTTCTCCTT----------
--TTCTCTATCCTCCAACTAAGTAAAGATATTATATTTTAGTTTTTATAGCCTGCTTATATCACCTTATTGTACTT--TC
TTATTCGGTTTGATCTCAGGAACGAATTCAATGCAAATAAAAGGTCCAAAACTGATCGAAACAAATTAATGTTGGCCTTG
GTTTCTCTCGTCGAAACGAATTAATCCTCGTCAATTTATATCCTTATTACCAAGGCGCAACGTCATAGCAGATCGATCAC
AGCAAACGATTCCTGCGTCTATCTCCCCGGAAACGTTCGATCCTATCGGCCAACCTCAGGGACAGTTAGCAATGGCGTAC
ACCCTGAAGATGACCTGTGTCGCCATCGCTCTCGCCGCCACCGCGCTCCTCTTCACCATCCCACGAGCTCAATGTATAAC
A-------------------------------------------------------------------------------
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>chr2D_1119
AAAAAA--------------------------------------------------------------------------
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-----------------------------------TTGCTTTTTTTCTGTTGCGATCGCTGATTGTTTTTTCTGCCGTGA
TTGATGACCAGCATGGGATGCGGACATGGTGCCGATGGGGGCGCCGGAGCACGCGTTGACGGCGATCCCGGGCGGTGGCG
CAGGGACGTTGGCAGCGGGGGCGCCGGTGTGCCTCCAGTGCCAGTGCTGCTCCAGGTCGAACCCGGGCAGCTGCCAGATC
ACCAGTTGCTGCTCCACCTTCGACTGCGACCCCACCGGTAAGTGCAACGTCGTGCAACAGAAGTGCGGCTGCAACGGCTG
CTAACCGGCCGGTCATCACCGTGCTAGCTGCCTCCGTGCCAATTTTTTCTATGGAGGAGCCAAATGTTTTCTTTGAAAAA
-AAAATCTCCCGTCTATTTTGTGTACTGCCAAATGAAATTGTTCCATCGTCGTGTTCGCGGGCCACAAATGCAGAGATAT
TACTATGTTATTACTGGGCCTAATAGAGGCCCACTATGTTATTACTGCAAGAAGGGGCAATTAAATTGGGCCACATTCTT
CAGCCCGTGAAGTCTGTTGAAACCTCCCCGTGAATCTACTATTATCGTTTTCAAACTCGCTTTTAAAAGGGGGGGGGGTT
TGATTTTTTTGCCACGATTTACTTCACACTTTGACAATTAGCCACTCGTTACTTTGTGTTTGCTTATTTGCCACTGATTA
GTTTGGACTTGGATGTTTTGCCCCTGTCACGAGGGACCCGTGTGGAAATCACCATATTGCCCATGTCCGTCCAATTCACC
AAGGAGATGAGCTCGTCTCCTCGCTCGTTCCCAATCCGTCTCTTGTCCGTCGCTACTGGTCCTCGACGGAAGACGGCGGC
GGCTCGTCCCGGCGGTTCCCCGTGGTCCTCGCGTGCTTGTCATGATGCAGGTGATGCTGTTTGCTGCCGCCGGTCCCGCA
TGCTCGTGCATTGCCGTCGCTCTGTTATGCCGCCGCCGCTTCTTCATGCCTTCCCGTACTATTGCTGCTGTTCGTGGCCG
GCCCATACTGCTGCTGTTGTTCGTGGCCATGTGTGCTAATGCTGCTTACTGGTGGTCGGCGGAAGGCGCGGTGGAGGCGC
TCGCTGCTGCCTGACTCCACTTGGGCGCCGTCCTGTTCGGCCATAGCGTGTACGTACATGGGCGCCGCCGTCTTTGCTGC
TGCTCCCCGCCACTGCATGTTGCTGCTGCCTATCGGCTAGCTGGAGCCGGCCTGCCCGCTGCGTGTAGAGGAGCGTCGCC
GTCGACTGCCGTGCGAACATGGGATGGGGATTGAGTTCGTCCCGTGC
>SNPs
-----------------------------S-S-------------------------------------------S----
------------------------------------------S--------------------S----------------
S-----------------------S--------------------------------S-----------------S---S
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-------------------------------S------------------------------------------------
--------------------------------------------------------------S-S---------------
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-----------------------------------------------S-----S--S-----------S---S--S----
--S------S----S----------S--------------------S----------------------S--------S-
-------------------------------S-SSS------------------SSSSSS---S--S--SSSSSSSSSSS
SS-----SS----SS----------------S---S--------------S-------------------------SS--
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---------S-------------------S--------------------------S-----------------------
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------------S-----------------------------------------------------S-------------
---------------S---SS------------------S----------------------------------------
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--------------------------------------------------------------S-----------------
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S-------------------------------------------------------------------------------
-------------------------------------------------------------------S------------
-----------------------------------S--S------------------------S-------S--SSSS-S
SSS-------------------------------------------------------------------------S---
------------------------------------------------------S----------S--------------
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----------------------------------------------------------------SS--------------
------------------------------------S-------------------------------------------
--------------------------------------S-----------------------------------------
--------------------------------S---------S-------------------------------------
--------S---------------------------------S--------S----------------------------
--------------------------S--------------------
>forward_1450
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----------------------------------------------------------------------GCTGGCCTTG
GTTTCTCTCC----------------------------------------------------------------------
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>reverse_2466
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-----------------------------------------------------------------CCCGTCCAATTCACC
AAGGA---------------------------------------------------------------------------
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