>input_sequence_73053
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-----------------------------------------------ATGGCTGACGATGCTGGCTATTGTTTTGTGGTA
GATATAAAGGTTGGGGGTGCATGTGATCCTAATAGTAGATTTGGTTTCCCCAAAGAACAAAAGATAACCGACTCTCGCTA
CTTTTCTGCAGTTCAGTGGTAAAAGAGTTGCCATTCTTGGGCTTGGCAGGATAGGCTTAGCCATAGCAAAAAGAGCTGAA
GCATTTGGTTGCTCAATCAGTTATCATTCAAGATCAGAGAAGCCAT----TTCCAAACTACAAGTTCTTTACAAATGTTG
TTGACCTGGCAGC-------CAATTGTGACGTGCTTATTGTAGCATGTTCGCTTAATGCCGAGACACATCACATGGTCAA
TCGTAAGGTCATGGATGCGTTAGGACCGGATGGTGTGCTCATAAACATTGGGCGTGGAGCACTTGTGGATGAACCTGAGC
TTGTGTCTGCTCTTCTTGAGAAACGCCTTGGCGCAGCAGGCCTTGATGTGTTTGAGCATGAGCCCTTTGCTGCGGAGCAA
CTTTTCAGCTTAGATAATGTTGTTTTGGTCCCTCATGTAGGAAGTGATACCGAAGAAACATGCAAGGCAATGGCTGATCT
GGTTCTAAAGAATTTAGAGGCACATGCTCTTAATAAGCCCTTACTCACCCCAGTGCCCTGA-------------------
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>chr3D_1_TraesCS3D01G160900
TGGAGGTTTTATGTTGTTGCATAGCTCCATATTGAATCGTATTAATACCAAGGCTGATGGATGATCAGAAAACGTTGGAA
ACCATGATTT--GTTTCTCCCTGACCATTGCTTCGTAGTAGCACAAATAGGATTCTTATAGCAACCATGGATGATGAGTC
TCATGACTAGTCGCGAGACTAGTCTAGTAGTCTCAATTTGATTGTCAACTAGCTTCTTCGTGTAGACTAGCTTGTTGAAT
TGAGCGGTGGAGTGACTAGTCTTCGACTAGTCTAGGTTTTTGAGTCGATCGACTCAATTTGGGTGGATCAGG--TTTTTA
GGGGAATTTGGGAGGGATGAGTGAGCAGTTGATTATTTCATCCACTTCCTGATGAAATAGCTATTGCAATTGGCAGAGCC
TCAGGTTCTTCATCCACTTCCCATGCATTCAATTTTTATTGTA-TATACGGTACTAGGTGTTAGTACTTGAGTACTGTAA
GTTGAGTACTATGGTACCATGTCGATTAGTCCAGCATTAGCCTAGACTAGTCATGATTAGTCTATGAGTCTCAACCTTGG
CTCGACTCGTCGACTTGTAATTCTTGATATCCGTCGACTTGTAATTCTAGATAACAACATGTTTTGTCATGTTCTCCATT
GTTTTATGGCTAAGTAAGTA-TTTATGCATCATACCAACCAAGGGTTCCATGATAATACCCACCAGAACTTTTCATGAAC
TGTATGGTGCAATATGCTCCTGTCACCGTGCCATTTTCCTGCTCCCTTAAAACATTGAAGGACATCTTCAGTGTGAGTGG
AATCCTGTTAAACAATGCAACACATTCAGGTGCACTTTTGGCTGCGCGCATCAATGGATGTGGAGGCTGGGGGTAGCACC
TGCATTTGAAAAG-CAAAAGAGTTCAGATGCAGCTATCTCAAGGGGAGAATGTCCTTTGCAAGATTGATCTGCTACAGAT
TATAATGATGAGATATCAGCGTAACGACTGTCCTATGAAAGCATGAAATGGCTGACGATGCTGGCTATTGTTTTGTGGTA
GATATAAAGGTTGGGGGTGCATGTGATCCTAATAGTAGATTTGGTTTCCCCAAAGAACAAAAGATAACCGACTCTCGCTA
CTTTTCTGCAGTTCAGTGGTAAAAGAGTTGCCATTCTTGGGCTTGGCAGGATAGGCTTAGCCATAGCAAAAAGAGCTGAA
GCATTTGGTTGCTCAATCAGTTATCATTCAAGATCAGAGAAGCCAT----TTCCAAACTACAAGTTCTTTACAAATGTTG
TTGACCTGGCAGC-------CAATTGTGACGTGCTTATTGTAGCATGTTCGCTTAATGCCGAGACACATCACATGGTCAA
TCGTAAGGTCATGGATGCGTTAGGACCGGATGGTGTGCTCATAAACATTGGGCGTGGAGCACTTGTGGATGAACCTGAGC
TTGTGTCTGCTCTTCTTGAGAAACGCCTTGGCGCAGCAGGCCTTGATGTGTTTGAGCATGAGCCCTTTGCTGCGGAGCAA
CTTTTCAGCTTAGATAATGTTGTTTTGGTCCCTCATGTAGGAAGTGATACCGAAGAAACATGCAAGGCAATGGCTGATCT
GGTTCTAAAGAATTTAGAGGCACATGCTCTTAATAAGCCCTTACTCACCCCAGTGCCCTGATTGTTGTTGGGGTGCCCAG
ATGTTAGCAGTTTGTAATCCAAACTCTTGAGTTTTTTTTTTATGTCTAGTTTATCAACCCAGCAACATCTGGCTGGTTAT
TGTTTTTGAAAGACATCA-ATGTGATGGCTGTTATGCAATCAACAACCTTGATAAATAAGAGCATCAGTTCCAAAGGTTT
ACAGTTCCATATATTTACAGAGATATTTGCATCTGTCCCTCTTCACTTGCTGGTACCTTTCTGTGTGGTCGGGTTATGCA
ATCTCGTCATTTCGTTTTGAATC----CTTTCTTAT--------------ATTTCCTTGTTTACGCAGATAGAACATTTG
TGGCTCCT---TTTACTCATAGGTTTTGTTTTATCCTTTTTGCAGTTCAGTGGCAAAAGAGTAGGCATCATCGGGCTGGG
CAGGATAGGGCTTGCCATTGCCACCCGAGTGGAGGCCTTCGATTGCCCAGTCAACTACTACCAGAGAACAAAGAAAGACT
GCCCCAGCTACACCTATTACCCTAGCGTGGTAGAACTGGCCGCAAACAGCGACATCCTCGTGGTGGCCTGCCCGCTGAAC
GAGCAGACCCGGCACATCGTCAACCGCGAGGTGATTGAGGCGCTGGGGCCCAAGGGCCTGCTCATCAACATCGGGCGCGG
CCCTCACGTCGACGAGCCCGAGCTGGTCTCCGCGCTCGTCGAGGGGCGCCTCGGCGGGGCGGGCCTCGACGTGTTTGAGG
ACGAGCCCAACGTGCCCGAGGCGCTGTTCGCGCTCGACAACGTCGTGCTGGTGCCCCACGTGGGGAGCGGGACGCACGAG
ACGCGCCAGGCCATGGCGGACCTGGTCCTGGGCAACCTGGAGGCGCATGTTCTGAAGAAGCCGCTGCTGACTCCGGTTGT
CTGATGATGATCATGATAGGGCGTGGTGTGTTGTATATGAAGAAGCACTACGAAGATGTTTTCTGTTTCAGGATCAGATT
CAAACGTGTTTTGTTTTCGATCGGTAAACATTCGACGAGAAAG
>chr3B_1
TGGAGGTTTTATGTTGTCGCATAGCTCCATATTGAATCGTATTAATACCAAGGCTGGTGGATGATCAGAAAACGTTGGAA
ACCATGATTTTTGTTTCTCCCTGACCATTGTTTCGTAGTAGCAAAAATAGGATTCTTATAACAACCATGGATGATGAGTC
TCATGACTTGTCACGAGACTAGTCTAGTAGTCTCAATTTGATTGTCGACTAGCTTCTTCATGTAGACTAGCTTGTTGAGT
TGAGCGGTGGAGCGACTGGTCCA-GACTAGTCTAGGCTTTTGAGTCGATCGACTCAATTTGGGAGGGATAAGTTTTTTTA
GGGGAATTTGGGAGGGATAAGTGAGCAGTTGATTACTTCATCCACTTCCTGAGGAAATAGCTGTTACAATTGGCAGAGCC
TCAGGTTCTTCGTCCACTTCCCATGCATTCAATTTTTGTTGTAATACT--GTACTAGGTGTTAGTACTAGAGTACTGTAA
GTTGAGTACTACAGTACCATGTGGACTAGTCCTGCATTAGCCTAGACTAGTCATGATTAGTCTACGAGTCTCAACCTCGG
CTCGACTCGT--------AATTCTTGATAGCCGTCAACTCGTAATTCTTGATAGCAACACGTTTTGTCATGTTCTCCATT
GTTTTATGGCTAAGTAAGTAGTTTATGCATCATACCAACCAAGGGTTCCATGATAATATCCACCAGAACTTTTCATGAAC
TGTATGGTGCAATATGCTCCTGTCACCGTGCCATTTTCCTGCTCCCTTAAAACATTGAAGGACATCTTCAGTGTGAGTGG
AATCCTGTTGAACAATGCAACACATTCAGGTCCACTTTTGGCTGCGCGCATCAATGGATGTGGAGGCTGGGGGTAGCACT
TGCATTTGAAAAAACAAAAGAGTTCAGATGCAGCTATCTCAAGGAAAGAATGTGCTTTGCAAGATTGATCTGCTGCTGCT
TATAATGATGAGATATCAGCCTAACGACTGTGCTATGAAAGCATGAAATAGCTGACGATGCTGGCTATTGTTTTGTGGTA
GATATAAAGGTTGGGGATGCATGTGATCCTAATAGTAGATTTGGTTTCCCCAAAGAACAAAAGATAACCAATTCTCGTTA
CTTTTCTGCAGTTCAGTGGTAAAAGAGTTGCCATTCTTGGGCTTGGCAGGATAGGCTTAGCCATAGCAAAAAGAGCTGAA
GCATTTGGTTGCTCAATCAGTTATCATTCAAGATCAGAGAAGCCAT----TTCCAAACTACAAGTTCTTTACAAATGTTG
TAGACCTGGCAGC-------CAATTGTGACGTGCTTATTGTAGCATGTTCGCTCAATGCCGAGACCCATCACATTGTTAA
TCGTAAGGTCATGGATGCACTAGGACGAGATGGTGTGCTCATAAACATTGGGCGTGGAGCACATGTGGATGAACCTGAGC
TTGTGTCTGCTCTTCTTGAGAAACGCCTTGGAGCAGCAGGCCTTGATGTGTTTGAGCATGAGCCCTTTGTTCCAGAGCAA
CTTTTCAGCTTAGATAATGTTGTTTTGGTCCCTCATGTAGGAAGTGATACAGAAGAAACATGCAAGGCAATGGCTGATCT
GGTTCTCAAGAATTTAGAGGCACATGCTCTTAATAAGCCCTTACTCACCCCAGTCATCTGATTGTTACTGGGATGCCCAG
ATGTTAGCAGTTTGTAATCCAAACTCTTGAGTTTTTTTTTTATGTCTAGTTTAATT----------ATCTGGCGGGTTAT
TGTTTTTGAAAGACATCA-ATGTT-TGGCTGTTATGCAATCAACAACCATCATAAATAAGATTACCAGTTTCTAAAGTTT
ACAGTTCCATATAT---------------------TCCCTCTTTACTTGCTGGTACCTTTGTGTGTGGTCGGGGCATGCA
ATCTCGGCATTTCGCGTTGGATCCTTTCTTTCTTAT--------------ATTTCGTTTTTTACGCAGATAGAACAGTTG
TGGCTCGT---TTTTCTCATAGATTTTGTTTAT--CTTTTTGCAGTTCAGTGGCAAAAGAGTGGGCATCATCGGGCTGGG
CAGGATAGGGCTTGCCATTGCCACCCGAGTGGAGGCCTTTGATTGCCCAGTCAACTACTACCAGAGAACAAAGAAAGACT
ACCCCAACTACACCTATTACCCGAGCGTGGTCGAACTGGCGGCAAACAGCGACATCCTGGTGGTGGCTTGTCCGCTGAAT
GAGCAGACCCGGCACATCGTCAACCGCGAGGTGATCGAGGTGCTGGGGCCCAAGGGCGTGCTCATAAACATCGGGCGCGG
CCCTCACGTCGACGAGCCCGAGCTGGTCTCGGCGCTCGTCGAGGGGCGCCTCGGCGGGGCAGGCCTCGACGTGTTCGAGG
ACGAGCCCAACGTGCCTGAGGCGCTGTTCGCGCTCGACAACGTCGTCCTGGTGCCACACGTGGGGAGCGGGACGCACGAG
ACGCGCCAGGCCATGGCGGACCTTGTCCTGGGCAACCTGGAGGCGCATGTTCTGAAGAAGCCGCTGCTGACTCCGGTTGT
CTGATGATGATCATGATAGGGCACGGTGTGTTGTATATGAAGAAGCACTACAAAGATATTTTCTGTTTCAGGATCAGATT
GAAACGTGTT--ATTTTCGATGGGTAAACATTCGACGAGAAAG
>chr3A_337
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--------------------GTGAACAGTTGATTACTTCATCCACTTCCTGATG-AATAGCTACTACAATTGGCAGAGCC
TCAGGTTCTTCATCCACTAACCATGCATTCAATTTTTATTGTA-TACT--GTACTATGTGTTAGTAGTTGAGT-------
-------ACTACAGTACCATGTCGACTAGTCCAGCATTAGCCTAGACCAGTCATGATTAGTCTATGAGTCTCAACCTTGG
CTTGACTC------------------------GTCGACTCGTTATTCTTGATAGCGACATGTTTTGTCATGTTCTCCAGT
GTTTTATGGCTAAGTAGATAGTTTATGCATCATACCAACCAAGGGTTCCATGATAATACCCACCAGAACTTTTCATGAAC
TGTATGGTGCAATATGCTCCTGTCACCGTGCCATTTTCCTGCTCCCTTAAAACATTGAAGGACATCTTCAGTGCGAGTGG
ATTCCTGTTAAACAATGCAACACATTCAGGTGCACTTTTGGCTGCGCGCATCAATGGATGTGGAGGCTGGGGGTAGCACC
TGCATTTG-AAAAACAAAAGAGTTCAGATGCAGCTATCTCAAGGAGAGAATGTCCTTTGCAAGATTGATCTGCTACTGAT
TATAATGATGAGATATCAGCCTAACGGCTGTCCTATGAAAGCATGAAATAGCTGACGATGCTGGTTACTGTTTTGTGGTA
GATATAAAGGTTGGGGGTGCATGTGATCCTAATAGTAGATTTGGTTTCCCCAAAGAGCAAAAGATAACCGACTCTCGTTA
CTTCTCTGCAGTTCAGTGGTAAAAGAGTTGCCATTCTTGGGCTTGGCAGGATAGGCTTAGCCATAGCAAAAAGAGCTGAA
GCATTTGGTTGCTCAATCAGTTACCACTCAAGATCAGAGAAGTCAT----TTCCAAACTACAAGTTCTTTACGAATGTTG
TTGACCTGGCAGC-------CAATTGTGACGTGCTTGTTGTAGCATGTTCGCTTAATGCCGAGACGCATCATATTGTCAA
TCGTAAGGTCATGGATGCGCTAGGATCAGATGGTGTGCTCATAAACATTGGGCGTGGAGCACATGTGGATGAACCTGAGC
TTGTGTCTGCTCTTGTTGAGAAACGCCTTGGAGCAGCAGGCCTTGATGTGTTTGAGCATGAGCCCTTTGCTCCAGAGCAA
CTTTTCAGTTTAGATAATGTTGTTTTGGTCCCTCATGTAGGAAGTGATACAGAAGAAACATGCAAGGCAATGGCTGATCT
GGTTCTGAAGAATTTAGAGGCACATGCTCTTAATAAGCCCTTACTCACCCCAGTCATCTGATTGTTACTGGGATTCCCAG
ATGTTAACAGTTTGTAATCCAAACTCTGGG-------TTTTTTGTCTAGTTTATGAACTCAGCATTATC--------TAT
TGTTTTCGGAAGACATCATATGTTATGTCTGATATGCAAT---CAACCATGATAAATAAGACCATCAGTTCCAAAGTTTA
TT-----CATATATTTACAGAGATATTTGCATCTGTCCCTCTTCACTTGCTGGTACCTTTGTGTGTGGTCGGGGCATGCA
ATCTCGGCATTCCGTTTTGGATCCTTTCTTTCTTAT--------------ATTTCCTTGTTTAAGCAGGTAGAACATCTG
TGGCTCGT---TTTTCTCATAGATTTTGTTTAT--CCTGTTGCAGTTCAGTGGCAAGAGAGTGGGCATCATCGGGCTGGG
CAGGATAGGGCTTGCCATTGCCACCCGAGTGGAGGCCTTTGATTGCCCAGTCAACTACTACCAGAGAACAAAGAAAGACT
ACCCCAGCTACACCTATTACCCGAGCGTGGTCGAACTGGCGGCAAACAGCGACATCCTTGTGGTGGCCTGCCCGCTGAAC
GAGCAGACCCGGCACATCGTCAACCGTGAGGTGATTGAGGCGCTGGGGCCCAAGGGCCTGCTCATCAACATTGGGCGCGG
CCCTCACGTTGACGAGCCCGAGCTGGTCTCGGCGCTCGTCGAGGGGCGCCTCGGCGGGGCGGGCCTCGACGTGTTCGAGG
ACGAGCCCAACGTGCCCGAGGCGCTGTTCACGCTCGACAACGTCGTGCTGGTGCCCCACGTGGGGAGCGGGACGCACGAG
ACGCGCCAGGCCATGGCGGACCTGGTCCTGGGCAACCTGGAGGCGCATGTTCTGAAGAAGCCGCTGCTGACTCCGGTTGT
CTGATGATGATCAGGATATGAAGAAGTGAAGCACGAC---------------AAGATGTTTTCTGTTTGGGGATCATATT
GAAATCTGTT--GTTTTCGATCGGTGAACATTCGACGAGAAAG
>chr5A_1117
TTG-----------------------------------------------------------------------------
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------TGCAGTTCAGTGGTTAAACAGCTCCTATTCTTGGGCTTGGCACGATGTGCTTAGCTGTAGCAAAAGGAGCTGAC
GCATTTGGTTGCTCAATCAGTTATCATTCATGATCACACAAGCCATTAATTTCCAAAGTACAGGTTCTTTACAAATGTTG
TTGACCTGGCAGGCAAGAGGCAACTGTGATGTGCTTCTTGTAGCATGTTCCCTTGATGCAAAGACCCATCACACTTTAGT
TGTACAA-TCATGGATGGACTAGGACCAGAGGGTGTGCTCATAGGCATC---CGTGAAGCACATACGGATCAACCTGAGC
TTGTATCTGCT---------------------------------------------------------------------
--------CTTAGATAATGTTGTTTTGGTCCCTCATGTAGGAAGTGACACGGAAGAAACATGCATGGCAATGGTTGATCT
GTCTCGAAAGAATTTAATAGCACATGTTTTGAGCTGC-------------------------------------------
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----------ATATTTACAGGAATATATGCATCTGTC------------------------TGTGTGTTCAGAGTGTGCA
AACTCCGCCTTTCGTTTTAGATGTTTTCTTTCTTATCTTTGTGTAACGTGATTTACTTGTTTATGCACATAGAACATGAT
TTGTTATTTGATTTTCTCATGGATTTTGTTTAT--CCTTCTGCAGTTCAGTGGCAAAAGAGTGGGCATTATTGGGCTGGG
CAGGATAGGGCTTGCCATTGCCACTCGAGTGGAGGCCTTTGATTGCCCAGTTAACTACTACCAGAGAACAAAGAAGGACT
ACCCCAGTTACACCTATTACCCTTCTGTAGTTGGATTGGCAGCAAGCAGCGACGTCCTCGTGGTGGCTTGCTCATTGAAT
GAACAGACTCGCCACATTGTCAACCGTGAGGTGATCGAGGCACTCGGACCCAAGGGTGTGCTCATAAACATCGGGCGTGG
CCCTCATGTTGATGAGCCTGAGCTTGTCTCTGCCCTCATTGAGGGGCGCCTTGGTGGGGCAGGCCTCGATGTGTTTGAGG
ATGAGCCCAATGTGCCCGAGTCCCTCTTCACACTTGACAATGTTGTCCTGGTATCACACATGGGGAGCGGGACACACGAG
ACGCGCAAGGCGATGGCGGACCTGGTTCTCGATAACCTGGAGGCGCATGTTCTGAAGAAACCACTGCTGACACCTGTTAT
CTGATATGAT----------------------------------------------------------------------
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>SNPs
-----------------S--------------------------------------S-----------------------
------------------------------S------------S----------------S-------------------
--------S---S---------------------------------S------------S------------------S-
------------S----S---SSS------------S--------------------------S--SSS-S---------
------------------S----------------S-----------------------------S--------------
----------------------------------------------SSSS------------------------------
-----------SS------------S------------------------------------------------------
----------SSSSSSSS-----------S---------S--------S----S--------------------------
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------------S-------------------------------S-------------------------------S---
--------------------S----------------------------S------------------------------
-----------------------------------------------------------------------------S--
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-----------------------------------------------------------------S--------S-----
-------------------S-------S----------------------------------S-----------------
-------------------------------S---------------------------------------S-S------
--------------------------------------------------S-----------------------------
------------------------------------------------------SSS---------SS----S-------
------------------------------------------------------S---S-----SS-------S------
-----------------------S------------------------S------------S------------------
------------------------------------------------------------S------------S------
------S------------S------------------------------------------------------------
------S-------S-------S--------SSSS---------------------------S-----------------
---------------------------------------S----------------------------------------
S------------------------------S--------S---------------------------------------
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------------------------------S-------------------------------------------------
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-----------------------S---------------------------S----------------------------
S---------SS-------------------------------
>forward_262
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--AGCGGTGGAGTGACTAGTCT----------------------------------------------------------
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>reverse_1512
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-----------------------------------------------------------------------GCGGAGCAA
CTTTTCAGCTT---------------------------------------------------------------------
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>forward_1388
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--------TCATGGATGCGTTAGGACCG----------------------------------------------------
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>reverse_2652
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-----------TGTTTTCGATCGGTAAACATTCGA--------
