>input_sequence_53677
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---------------ATGGCTCCGGTGAAGGTGTACGGGTTGCCCATGAACGGAAGTGTGGCACGCGTTCTGGTATGCCT
AGAGGAAGTGGGAGCCGAGTATGAGGTCGTGGCTGTCGACCTACACACCGGTGAGCACAAGAGACTGCCGCATCTTGCTC
GTAATGTATGTTGCCGCCATGTCCCTCTTTGATTACATACATACTATGTATCTATCTTCTTGCCTCTTTGACTATATAGT
TGTGTTGTTGTAAGGCTAATTAGATGCATCAAGTTACATGAATCAACACTTTGCGAAAGCTGATAGGGATCTTTTTTTTT
CTTGTCTCTGCTGTCCACAGCCCTTCGGCCAGGTCCCTGCGTTCCAGGATGGAGACCTGATCCTTTTCGGTGAGTAGCTT
CCTTGCTTAATTTGTGTGATATTGTA--------ATGATGGACACTATCATTTACTATTGA-TAGCGCCATGGTAGATGT
CTCAATCGAGGTAGTTATTTTATCAGATAATGGTAGGTTGTAAAATGCCAAAGTCATGTCTCCTTTTTCAACTAGTTAAG
CACATCCTCTAAGTCACTAGGCTAGTATATAGTTCAGGAATTTTTCCTAGTTATATTGCTTGGATATTGTTATTCCTTTT
TATATAAAAGATAAGAATAATACTTCAAATAACTAGTGCATCATGAGTGAAAAGGGCAAGGCCCCATCTCGCACCACTGA
ATTATTCCAAATGTGTTATGATTTGGAAAAAGAGATAAGCAAAAAACGCCTTGCATTGCAAAGGATTGGATATGTGGTAA
TTATTATTATTTTGGCCCTTGGTGCAAATAAATAAATAAATAAGAACATGAATCCATATAATGTTTTTAGAAAATCAGAT
CTCTATAACTAGTTGAATTGTTTGCATGTATAACTAGCTGATTTTTGACAGAATCACGGGCAATCTCAAAGTATATACTC
CGAAAAGAATCATCAGATTTACTGAGGGAAAACAACCTCTCTGAGTCTGCAATGGTTGATGTGTGGCTTGACGTCGAATC
CCAGAAATTTGACAGCGTCATGCTGCCAATCATCTTTCAAGGGCTTGTCATCCCGGTTTACATGGGTGGGACTAGCGATC
TTAAAGTTCTTGAAGAAAACCTAGAAAAACTGAAGGAAATCATGGAAGTCTATGAGGAACGCTTGTCCAAGTCCAAGTAC
TTGGCAGGAGATTTCATCAGCTTAGCGGACATTAGCCATTTCCCAATGGTTCACCTATTGCATGAAACTCCATATGCATC
GGTGCTCGATGCATATCCACATGTGAAAGCATGGATTGCTGGCGTAATGGATCGTCCTACTGTGAAGAAGGTCATCGGGC
TTATGAAGACATTTGGTTGA------------------------------------------------------------
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>chr1D_1_TraesCS1D01G011800
ATACACAATGACATATTTCAATCACACGGCGGATATATTTCAAATACGCGATGAACATTTCTCAATTATTATTTTCAATT
TTCATAATATTTATATTTCCTTCAAATATTTTAGGACCAGAAAAACATTGGTTTTGCATGTTTTGTCCATTTCCTTTGGT
GTTTTGGTTTTGCATGTTTTGTCCATTTCCTAGAAACACACTCCAAATAGTATTTCTAGCAGTTTTCTTTATAAGAAACT
AAAAAGGCCATGGTTTGGATATTTGGCTTGACCATCCACATAAATATCCTCCTCATTTGATTTCATTGGAAATGTTTAAC
ATACTGACAGAACTCGAAATCCGAGTTTTTTTTTGGCGGGGAAGGTTGAAAGAAATTCCTATT-GGGTAACATTCCATGA
CCCAAGATTGGGTGGAG---------------------------------------------------------------
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----------------------------------------------------------------------------AATT
AAACACATGTGGAGTATCAACTAATTAACGGTTCGGTAGCTTGGCGGTGTCACTTTTCATTTCTTC--------------
--------------------------ATGAATAAGGTACATTTTCAGTCTCCGCAAAATATAGTTACATTTTCGGTATCG
GCCTTCCGTTCCTGTTGGACACTGCATCTCTGTCTCGACATACAAGTAAGTCGTATTTATCAACATGCGTATTATAAACT
GTATGTGTATTATAATC---TATATGTCAGATTCGTTGTCTACTCGACATGGCAAGAACTAGCTAGGTGGCAATTATTAA
TTGTATTGTTCAATTAAGTTGTCAACTGCTCTTAGCCCCAATAAGCTCATATCAGATAGCCTTGATGG---TATTAATTA
ATTGTGCTTGGTTGCCAAGTAAG---------TGACCGGTGCTACCTGTGCATTACTTTGTTGCTAGGTAATGTCAAAAC
CAGATGGTATGCTTCAAACTGCATGCAATGGGTTGACCACTAGTTATCTATAAAAAGCACACCTTT--------------
------ACACCACAAAATCCATCATTCCCAAGGATCTCCTTGTCCTTCGTCTTGGCTCCACAACACCACAACTGATACTA
GTAAGTAAGAAAATAATGGCTCCGGTGAAGGTGTACGGGTTGCCCATGAACGGAAGTGTGGCACGCGTTCTGGTATGCCT
AGAGGAAGTGGGAGCCGAGTATGAGGTCGTGGCTGTCGACCTACACACCGGTGAGCACAAGAGACTGCCGCATCTTGCTC
GTAATGTATGTTGCCGCCATGTCCCTCTTTGATTACATACATACTATGTATCTATCTTCTTGCCTCTTTGACTATATAGT
TGTGTTGTTGTAAGGCTAATTAGATGCATCAAGTTACATGAATCAACACTTTGCGAAAGCTGATAGGGATCTTTTTTTTT
CTTGTCTCTGCTGTCCACAGCCCTTCGGCCAGGTCCCTGCGTTCCAGGATGGAGACCTGATCCTTTTCGGTGAGTAGCTT
CCTTGCTTAATTTGTGTGATATTGTA--------ATGATGGACACTATCATTTACTATTGA-TAGCGCCATGGTAGATGT
CTCAATCGAGGTAGTTATTTTATCAGATAATGGTAGGTTGTAAAATGCCAAAGTCATGTCTCCTTTTTCAACTAGTTAAG
CACATCCTCTAAGTCACTAGGCTAGTATATAGTTCAGGAATTTTTCCTAGTTATATTGCTTGGATATTGTTATTCCTTTT
TATATAAAAGATAAGAATAATACTTCAAATAACTAGTGCATCATGAGTGAAAAGGGCAAGGCCCCATCTCGCACCACTGA
ATTATTCCAAATGTGTTATGATTTGGAAAAAGAGATAAGCAAAAAACGCCTTGCATTGCAAAGGATTGGATATGTGGTAA
TTATTATTATTTTGGCCCTTGGTGCAAATAAATAAATAAATAAGAACATGAATCCATATAATGTTTTTAGAAAATCAGAT
CTCTATAACTAGTTGAATTGTTTGCATGTATAACTAGCTGATTTTTGACAGAATCACGGGCAATCTCAAAGTATATACTC
CGAAAAGAATCATCAGATTTACTGAGGGAAAACAACCTCTCTGAGTCTGCAATGGTTGATGTGTGGCTTGACGTCGAATC
CCAGAAATTTGACAGCGTCATGCTGCCAATCATCTTTCAAGGGCTTGTCATCCCGGTTTACATGGGTGGGACTAGCGATC
TTAAAGTTCTTGAAGAAAACCTAGAAAAACTGAAGGAAATCATGGAAGTCTATGAGGAACGCTTGTCCAAGTCCAAGTAC
TTGGCAGGAGATTTCATCAGCTTAGCGGACATTAGCCATTTCCCAATGGTTCACCTATTGCATGAAACTCCATATGCATC
GGTGCTCGATGCATATCCACATGTGAAAGCATGGATTGCTGGCGTAATGGATCGTCCTACTGTGAAGAAGGTCATCGGGC
TTATGAAGACATTTGGTTGATAGA-AACTATACAATAATTTGTGCACATTCGAGATGAATGTTGGTGGAACATGATGTGG
TTGTGGTTTGAAAATCCTATGATTTCAATAAAGGGGACAAAATATGTAATACCTAGTATGTCACTACTCCAAGTTAATGT
AATTGTCATTTATCAATCATATGTTGTTGTTTGGTAGTGTGTTTATTCTTCCCATTTTCCTATTACTACATTTTAATTGT
AGTGATTAAAGCATTAAAAATGTAGCAAAAATG---TGTTGTAAGCATATGTTATGCATTTGGTAGGCTTTTCTAGTTCT
AGCTGCATCTTAACCACCGAGATGTGGGGGCTATGTAGTAGTGGAACAGAGAGGCCTTGGAACTATTAATTTGTTTACAT
ATGCACG-TAGGTTGATGAGGACAAAATTAAAAAAATACAAAGAAACAATCGAGAGGACCAAAAGTTCAAGTACCAAACT
AGATATCTTCTGCCCTTCATCTTCCATTCCTTCTTCGCCTCTGATAGGCCACTCTGCCTTGAGTTGGAAACAGAGCTATA
AGAGTCAATGTTTTTTCAGGACTATATATTCCATATAAAACCCTCTTTGTGGAACATGTGAGCATATTTTAACCAAGGTC
GTGGCTTCAAGCTTACATCATGGTGTATAGATAAGATGAAGTACTGTGACGCCCCCGATTTGACCGTACACTAATCATGC
ACGCCAACGTGTACGATCAAGATCAGGGACTCACGGGAAGATATCACAACACAACTCTAAAACATAAATAAGTCATACAA
GCATCATAATACAAGCCAGAGGCCTCGAGGGCTCGAATACAAGTGCTCGATCATAGACGAGTCAGCGGAAGCAACAATAT
CTGAGTACAGACATTAGTTAAACAAGTATGTCTTAAGAAGACTAGCACAAACTGGGTTACAGATCGAAAGAGGCGCAGGC
CTCCTGCCTGGGATCCTCCTAAACTACTCCTGGTCGTCGTCAGCGGCCTGCACGTAGTAGTAGGC
>chr1A_195
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----------------------------------AACACACTCCAAATAGTATTTCTACCAGTTTTCTTTA--AGAAACT
AAAAAGGGCATGGTTTGGATATTTGGTTTGACCATCCACATAAATATCCTCCTCATTTGACTTCATTGGAAATGTTTAAC
ATGCTGACAGAGCTTGAAATCCAA----TTTTTGGGCAGGGAAGCTTGAAGGAAATTGCTATTGGGGTAACATTCCATGA
CCCA-GATTGGGTGGAGAATGCTTATGGGCTGGGCAGGCCACCAAATAGTTGGGCCTCACTTAGTGTGCTGGTTTCTTTA
GCATATTAATGGTAACTAGAGGCTAACGCACCGTTCTCTTCACTGGTGGAATGTCATTTTCTCTAGCAGGTTATTGTAGT
CGGTTTTTTGTTCTCATTTTATCTGTGTTGGCTTAGGTTTTAATTATGTTCTGGCGGTGTTTTTTTCATTTGTATACCAT
GAATCCATGATGGGCTGTCATTAGAGATGATATTTGTTCTGAAAAAAGAGTGAAGTCGTTTGATGTATGGCTGTGGTGTC
CTTACATGTTTCGCCTCGGCGTCAACCGGTGGTTGTTGTGCGAGCCACTTGGGAGCTCCTTTTTTATATATCGCCTCGGG
AGTTCTTATTTCCACAGTGAAACCAGGGATTAGATGCTACAACGTTCACATGGGTTGGGACACGAAGCTCTCGCTCATTA
GCTTGACTCCCGGCTCCACTCGCTCGCTCCACTGCTGGCTCATAATAAGCCAGCTACCTTTTTTTATTTTTTTAAAGGTT
CGCTGAAACCAAAAGATATTCATGGATTTTAGAAAAAAGGATTTTTGAAACTTTGTTAATTAAGAAAACCATGATTTTTA
AAAAATATTCATATATTTCAAAATATGTTTGAAATTTAAATTTAACTTAGAAAATTTAAGGCCCCAACAACCCCATAGCC
CTCAACGCACCAGGAGGCTTCAAATCTAGGGAGCTTAGTATCTTAATTCAAATCTAGGGTGCTGCAATTATGTTTTTTTA
GCAAGATCAAATTCAAATTCAAAGAACATCCCAAACAGATTATTCTTAACTACGAGCTCACTCTTCATACAAGGCAAGAT
GAGACACAAAATCTTATGCCATTGGGTGCATCCATTCTCAGATTGATGTACCTTTGTTGTTGAAAAAGTCTGACGAAATT
AAACACATGTGGAGTATCAACTAATTAACGGTTCAGTAGCTTGGAGGTGTCACTTTTCATTTCTTCTTCTTCTTCTTTTT
TTTTGCGAGTCACTTTTCATTTCTTCATGAATAAGGTAAACTTTCAGTCACTGCAAAA----------------------
-----------------------------------------------------------------------------ACT
GTCAGTTTATTATAATCTAGTATATGCCAGATTCATTGTCTACTCGACAGGGCAAGCTAGGTGG----------------
----------CAATTAAGTTGTCAACTGCTCT-------------CTCACATCCGGTAGCCTCGATCGTACTATTAATTA
ATTGTGCTTCATTGCCAAGTAAGTGTGACAATTGACCGGTGCTACCTGTGCATTACTTCGTTGCTAGGTAATGTCAAAAC
CAGATGGTATGCTTCGAACTGCATGCAATGGGTTGACCACTAGTTATCTATAAAAAGCACACCTTTGGCCTTTGGGTCAA
GTATGTACACCACAAAATCCATCATTCCCAAGGATCTCCTTGTCCTTCGTCTTGGCTCCACAACATCACAACTGATACTA
GTAAGTAAGAAAATAATGGCTCCGGTGAAGGTGTACGGGCTGCCCATGAACGGAAGCGTGGCGCGCGTTCTGGCATGCCT
AGAGGAAGTGGGAGCCGAGTATGAGGTCGTGGCCGTCGACCTACACACCGGCGAGCACAAGAGGCTGCCACATCTTGCTC
GTAATGTATGTTGCCGTCATGTCCCTCTTTGATTACATACACGCTATGTATCTATCTTCTTGCCTCTTTGATTATATAGT
TGTGTTGTTGTAAGGTTAATTAGATGCATCAAGTTACATGGCTCAACACTTCGCGAAAGCTGATAGGGAT--TTCTTTTC
CTTATCTCTGTTGTTCACAGCCCTTCGGCCAGGTCCCCGCGTTCCAGGATGGAGACCTGGTCCTCTTTGGTGAGTAGCTT
GCTTGCTTAATTTGTGTGATGTTGTAGTTATAATATGATATACACTATCATTTACTATTGGTTAGCGCCGTGGTTGATGT
CTCAATCAAGATAGCTATTTTATCAGATGATGGTAGGTTGTAAAATGCCAAAGTCATGTCTCCTTTTTCAACTAGTTAAG
CACATCCTCCAGGTCACTAGGCTAGTATATACTTCAGGAATTTTTCCTAGTTATATTGCTT-GATATTTTTATTCTTTTT
TATATAAAGATAAG--ATAATACTTCAAATAACTAGAACATCATGAGTGAAAGGGGGAAGGCCCCGTATTGTGCCACTGA
ATTATTCCAAATGTGCTATGTTTTGAAAAAAAAAGAGATAAG-AAATGCCTTGCATTGCAAAGGATTGGCTATGTGGTAA
TTAA-ATTTTTTTGGCCCTTGATGCAAAAAAA-------ATAAGAACGTGAATTCATATAATGTTTTTAGAAAATCAGAT
CTCTGTAACTAGTTGAATTGTTTGCATGTATAACTAGTTGATTTCTGACAGAATCACGTGCAATCTCAAAGTATATACTC
CGGAAAGGATCATCAGATTTACTGAGGGAAAACAACCTCTCTGAGTCCGCAATGGTTGATGTGTGGCTTGACGTCGAATC
CCAGAAATTTGACAGCGTCATGCTGCCAATCATCTTTCAAGGTCTCGTCATCCCGGTTTACATGGGTGGGACTAGCGATC
TCAAAGTTCTTGAAGAAAACCTAGAGAAACTGAAGGAAATCATGGAAGTCTATGAGGAACGCTTGTCCAAGTACAAGTAC
TTGGCAGGAGATTTCATTAGCTTAGCGGACATTAGTCATTTCCCAATGGTTCACCTATTGCATGAAACTCCCTATGCGGC
GGTGCTTGATGCATATCCACATGTGAAAGCATGGATTGCTGGCGTAATGGATCGGCCTACTGTGAAGAAGGTCATGGGGC
TTATGAAGACATTTGGTTGACAAATAACTATATGGTAATTTGTGTGCATTAAAGATGAATGTTGTTGGAACATGATGTGG
TTGTGGTTTCAAAATACTATGATTTCAATAAAGGGGACAAAATATGTAATAGATAGTGCCTCTTTGCTCTGAGTTAGTTT
AATTGTCATGTATTGGTCATATTTCATTAATTTATAGTGTGTTTATTCTTCCCATTTTCCTATGACTGCATTTTAATTGA
AGTGATTTAATCATTAAAATTGTAGCAAAACCGCATTGCTTTAAGTATAGAACGTGTATTTGGTAGGATCTTATAGTTCT
AGCTGCCTCTTAACCACCGAGATGTGGGTGATATGTAGAAGCAGAATAGAGAGGCCTTGAAATCATTAATTTGGTCTATA
TATGGACATAGGTTGTTGAGGAAAAGGTTAAAAAAAAGCAAAGAAACATTC-----------------------------
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>SNPs
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS------------------------S------------SS-------
-------S------------------S---------------------------------S-------------------
--S--------S--S-------S-SSSS-----S---S------S-----S------S----------------------
----S---------------------------------------------------------------------------
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----------------------------------S---------S-----------------------------------
--------------------------------------S-S--------S-S------SSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS---
--SS--S-------------------S-------S--------------S------SSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSS----------------------SSSSSSSSSSSSS----S---S-S------S---S-------------
---------SS-----------------------------------------------S---------------------
---------------S----------------------------------------------------------------
-----------------------------------------------------------------S--------------
---------------------------------------S----------------S-----S----------S------
---------------------------------S-----------------S-----------S-----S----------
----------------S------------------------SS----------------------------S--------
---------------S------------------------SS---------S------------------SS--S----S
---S------S---S----------------------S---------------------S----S--S------------
S-------------------S------------------SS-------------------S--------S----S-----
-------S--S---S-------------S---------------------------------------------------
---------S-S-------------------S-----------------------------S------S------S----
--------SSSS-SSS--------------------SS--------------S---S--------S-S-S-SS-------
---------------S----S----S-----S-SSSS-SS-SS---S----------------------S----------
---SS---S------------S------S---SSSSSSS--------S-----S--------------------------
----S--------------------------------S------S-------------S---------------------
--S----S---------------------------------------S--------------------------------
------------------------------------------S--S----------------------------------
-S-----------------------S----------------------------------------------S-------
-----------------S-----------------S-----------------------------------S-----SS-
------S-----------------------------------------------S--------------------S----
--------------------S-S---------SSS---------SS----SS------------S---------------
---------S-----S-----------------------------------SS----SSS--SS-S---SS-----S-S-
---------S---SSS------S-SS--SS--SS-----------------------------S---S-----------S
-------S--S--------S----------SS------S-S----S---SSSSS--S----------S-S--S-------
------S---------------------S-S-------S--SS---S------------S--SS---------S-SSSSS
SSSSSSS--------S------S--SS---------SS----------S--SSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
>forward_1544
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----TCCGTTCCTGTTGGACACTG--------------------------------------------------------
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>reverse_2388
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-------------------------------------------------------------------CGGTGAGTAGCTT
CCTTGCT-------------------------------------------------------------------------
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>forward_1719
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-------------------TGTCAACTGCTCTTAGCCCC-----------------------------------------
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>reverse_3008
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-----------------------------------------------TGCAATGGTTGATGTGTGGC-------------
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>forward_1986
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----------------------------------------------TCGTCTTGGCTCCACAACAC--------------
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>reverse_3991
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----------------------------------------------------------------------AACCAAGGTC
GTGGCTTCAA----------------------------------------------------------------------
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