>input_sequence_82491
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--------------------------ATGCACCTCAGGCAGCAGCAGCAGCAGCACCACAGGGCGGAGATGGTGGCGCCC
AAGGGGTGCGTGACGGTGCGCGTGGGGGCGGAGGGGGAGGAGCAGCGCCGCTTCGCCGTGCCGCTCGACCACCTCAAGCA
CCCGCTCTTCGGGGCCCTGCTCGATGAGGCCGAACGCGAGTACGGCTTCAGGCACCAGGGCGCCATCGCCATCCCCTGCC
GCGTCGACCGCTTCGTCCACGTCGAGCGCCTCATCGACCGCGACCTCGGCGCGCACGGCCACCAGCTCGTCGACCTCGAC
TGCGGCGCCGCCACCGCCCACGGCCACGGCCACCTCCACCTGCCGCGCTTCGTCGGCTGCTTCCGCGCCTGA--------
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>chr1D_1_TraesCS1D01G177000
TATAGGAGAATTCAGATCAGATAGGAATT-TTGTCATACAATACACATATGCAACTGTCTGAATCCGGTACAGCTGGTGA
CGCCCGCATAGAATATTTGCGGTCAACTTGCAAACTTTGCGAGCTAACGAGCGAACGAAT--------ACCTCATCGTCT
TGGCCAAAGAATCCGGCCGAACCGTTG---GCCCCAGAAAGAATATCCTTTTCCTTCCGTTATTATCCTCGAAAGAACCC
GTCGATCGGATCCCAAGCATACAGGCCTCCTCCTCCTCCTCGC-----AGCCAAGTCAACCCCAAACCGAGAGAG----A
GAGAGAACAAACAGTACACGCGAGAAAAGAATACGTAACAAACTCTCGAGTCCCAAGACCCAGCCAAGCAAATCGTAACC
GC---CGCCAGGCCTGCATCCTCATCTGAACCCAGATCGGCCGGCCCTGGCCCCAACCGCAACCGCAGCCGCAGCGGCCA
CGCGCGCGCA------------TGCCCGGCCTGACCTGACCTGACCTGACCTGACCACCTCCCCTCCCTTCCTTCTCCCC
AAAGAAACGC------------CGCCCAACCGCGCGCGCCCACGCGAGGTCGGTCGCGTCTCCACGGGTCCGGCCCGC--
--TCGCTCGGGTAACGGAGACGGGACGGGCACGGGAAGGAAACGGAGGACACC---AGGTTACCAACCCCGCACCGCACC
TCACCGCAC----------CCGGGGCTGCTATAAAAAGCGGGGCTCCCTCGCCTCCCAACCTCCCCTC-TTCTTCTTCGC
CAACAACGACCTACGACCTCCTCCTCACCAG-AAAAAAAAGAAGAAAGCAGGCAAGGTGGAGTAG----GAACCATGTCC
AACGTGCCCACCTCCCTCCGC-----------------------------------------------------------
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------------GACTCCTCCCTCACCGTCTTCCGCCTCGCCATCTCCAGCTCCGACCCCTGGCCCTTCTCTTCCTAACC
CCAAACCCCTCCTCCCGCCTCTCGAGCTCTGCCGTCCGATCTCCCTCCCCCGTC-TCCTCCTTCCTCGCAACAGCCAGAA
GACTCGTCCGGTCCT---CGCCTCCGATGCACCTCAGGCAGCAGCAGCAGCAGCACCACAGGGCGGAGATGGTGGCGCCC
AAGGGGTGCGTGACGGTGCGCGTGGGGGCGGAGGGGGAGGAGCAGCGCCGCTTCGCCGTGCCGCTCGACCACCTCAAGCA
CCCGCTCTTCGGGGCCCTGCTCGATGAGGCCGAACGCGAGTACGGCTTCAGGCACCAGGGCGCCATCGCCATCCCCTGCC
GCGTCGACCGCTTCGTCCACGTCGAGCGCCTCATCGACCGCGACCTCGGCGCGCACGGCCACCAGCTCGTCGACCTCGAC
TGCGGCGCCGCCACCGCCCACGGCCACGGCCACCTCCACCTGCCGCGCTTCGTCGGCTGCTTCCGCGCCTGACGAT---G
ATGGCGACGCGTCGTCGACCGCTGGATCTCTTGCTGTTTCTTTGTTAGGGTTGGTT----GAGTAGTTCTCTTCCGTATG
CTGCTGGCTAGTTTGTTTCGCCCTCCGGTCTCGATC----TCCCGTACGTATGGGTTTGTTATGCATGGTTGTTCTCCAT
TGGTTTGTTTTGT----GCTGGGAGAATCGATCGGAGGACGAATTCCATGTTGATGATGATGATGAAAAGTTATGATCCA
AGTGTAAAGAG--AATATAATTGTTAGTAGCTTATTAATCCTGTCCTTTTTTCCTTTTGTCAATTTTATGCTCTCCGCAG
AAGAAGTAGCTGTGGTTGTGCCTTGGGAGAATATGTTATTGCTTGTCTACGCGATATATCATCAAACATGTATACGCCTC
ACTCTTTTGACGGGAAACTACAAAGGAACTTGTCGATAAATGCATCTGGAGTA---GATAGAAAGCAAATAATTTGTCAA
AATTAGTACTATCTCGCACCAACAAATACATGCCAGACGGCACAATTCACAACAC-AAATTGATATGCATACGAGGTGGA
GAATGATGCGATACCAAGTTTCGACATATATTCCCTTCTCCACCTTGGTGAGCATATCCAAGTAATATTCTGGGGTTCGT
TCTTACTAGTAATTGAGTAGTTCTTAGTTATTAGTATTATCCTAGATTAGATCTAGGTGCCAAAATTAGTTAAATGATAA
GCAATTCTTGTCACCTCGGAAGGACAATTAAAGGTTTCACTAATGTTATTACTACATGAAATATCTTGCTTATAAAAACA
AATAATAATATTGCAGCAC-TACCAAAGACACCCCCTCCCCCTCTCTTTCTATCTTTCCACTT-----------------
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----------------------TGGTTTTTTTTTATAAAGGGTGAACTTTATTAACTCAAAAATAAAGCATCAAATGAAT
ACAAACATATTGAGCATGCACCTGGCCTCTACATAACTAAGATGCACCTCAGCCTTGTGGCCTGATGGGGTGCCAGACTT
TGTTCATGCGATG-------------------------------------------------------------------
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>chr1B_17
----------------TCAGATAGGATTTGTTGTGATACAATACATATATGCAATTGTCTGAATCCGGCACAGCTGGTGA
CGCCTGCATAGAATATTTACGGTCAACTTGCAAACTTTG--------CGAGCGAACGAAT--------ACCTCATCGTCT
TGGCCAAAGGATCCGGCAGAACCGTTA---GCGCCAGAAAGAATATCCTTTTC----CGTTATTATCCTCGAACGAACCC
GTCGATCGGATCCCAAGCATACAGGCCGCCTCCTCCTCCTCGC-----AGCCAAGTCAACCCCAAACC--GAGAG----A
GAGAGAACAAACAGTACACGCGAGAAAAGA----------------------------CCGAGCCAAGCAAATCGTAACC
GC---CGCCAGGCCTGCATCCTCATCTGAACCCAGATCGGCCGCCCCTGGCCCCAACCGCAACCGCAGCCGCAGCGGCCA
CGCG----CA------------CGCCCTGCCTGACCTGACCTGACCTGACCACCTCACCACCCCTTCCTTCCTTCTCCCC
AAAGAAACGACCGCCCCGCCCACGCCCAACCGCGCGCGCCCACGCGTGGTCGGTCGCGTCTCCACGGGTCCGGTTCGTCC
CTTCGCTCGGGTAACGGAGACGGGACGGGCACGGGAAGGAAACGGC---CACC---AGGTTACCAACCCCGCACCGCACC
GGGGCT-------------CCTGGGCTGCTATAAAAGGCGGGGCTCCCTCGCCTCCCAACCCCCCCTCTTTCTTCCTCGC
CAACAACGACCT----CCTCCA---CATCAGAAAAAAAAAAAGGAAAGCAGGCAANNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNGACTCCTCCCTCACCGTCTTCCGCCTCGCCATCTCCAGCTCCGACCCCTGGCCCTTCTCTTCCTAACC
CCAAACCCCTCCATCCCCCTCTCGAGCTCCGCCGTCCGATCTCCCTCCCCCCTC-TCCTCCTTCCTCGCAACAGCCACAA
GACTCGTCCGGTCCT---CGCCTCCGATGCACCTCAGGCAGCAGCAGCAGCACCACCAGAGGGCGGATATGGTGGCGCCC
AAGGGGTGCGTGACGGTGCGCGTGGGGGCGGAGGGGGAGGAGCAGCGCCGCTTCGCCGTGCCGCTCGACCACCTCAAGCA
CCCGCTCTTCGGGGCGCTGCTCGACGAGGCCGAGCGCGAGTACGGCTTCAGGCACCAGGGCGCCATCGCCATCCCCTGCC
GGGTCGACCGCTTCGTCCACGTCGAGCGCCTCATCGACCGCGACCTCGGCGCGCACGGCCACCAGCTCGTCGACCTCGAC
TGCGGCGCCGCCACCGCCCACGGCCACGGCCACATACATCTGCCGCGCTTCGTCGGCTGCTTCCGCGCCTGACGAT---G
ATGGCGACGCGTCGTCGACCGGCGGATCTCTTGCTGTTTCTTTGTTAGGGTTGGTT----GAGTAGTTCTCTCCCGTATG
CTGCTGGCTAGTTTGTTTCGCCCTCCGGTCGCG-----------------ATGGGTTTGTTATGCATGGTTGTTCTCCAT
TGGTTTGGTTTGT----GCTGGGAGAATCGATCGGAGGACGAATTCGATGTTGATGAC---GACGAAAAATTATGATCCA
AGTGTAAAGAGATAATATTATTGTTAGTAGCTTATTAATCCTGTACTTTTTTCCTTTTGTCAATTTGATGCTCTCCGCAG
AAAAAGTAGA-----------------AGAATATATTGTTGCTTGTCTACGTGAAACATCT-----------TACTCCTC
GGTCTATTGACGGGAAAT---AACGAAATTTGCCGATAAATGCATCTGAATAGATTGAAAGCAAGCAAATAATTTGTTGA
AAGTAG---TATCTCGCACCAATATATACATGTCAGACGGCACAATTCACAACACAAAATTGATATGCATACGAGGTGGA
GAATGATGCGATACCAAGTTTCGACATATATTCCCTTCTCCACCTTGGTGAGCATATCCAAGTAATATTCCGGGGTTCGT
TCTTAA---TAATTGAGTAGTTCTTAGTTATTAGTATTATCCTAGATTAGATCTAGGTGCCAAAATTAGTTAAATGACAA
GCAATTCTTGTCACCTCGGAAGGATGATTAAAGGCTTCACTAACGTTATTACTACATGAAATATCTTACGCTTAAAAACA
AATAATAATATTGCAAAGAGTACCAAAGACCCCCCCTCTA----TCTTTCTATCTTCTTCCTTTGTT-------------
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------------------------TTTCTTTTCGATAAAGGATGAACTTTATTATCTCAAAATG-AAGCATCAAATGAAT
GCAAACATATTGACCATACACCCGGCATCTGCATAACTAAGATGCAC---------------------------------
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>chr1A_29
----------------------------T-TTGTCATACAATACATATATGCAACTGTCTGAATCCGGTACAGCTGGTGA
CGCCCGCATAGAATATTTGCGGTCAACTTGCAAACTTTG--------CAAGCGAGCGAACGAACGAACACCTCATCGTCT
TGGCCAAAGAATCCGGCCGAACCGTTATTAGCCCCAGAAAGAATATCCTGTTC----CGTTATTATCCTCCT-----CCC
GTCGATCGGATCCCAAGCACACAGGCCTCCTCCTCCTCCTCGCAGCCAAGCCAAGTCAACCCCAAACC--GACAGAGAAA
GAGAGAACAAACAGTACACGCGAGAAAAGAATACGCAACAAACTCTCGAGTCCCAAGACCGAGCCAGGCAGATCGTAACC
GCCAGCGCCAGGCCTGCATCCTCATCCGAGCCCAGATCGGCCGCCCCTGGCCGCAACCGCAGCCGCAGCCGCAGCGGCCA
CGCG----CCCGCCCGCCCGCCCGCCCGGCCTGACCTGACCTGACCTGACCCGACCACCTCCCCTCCCTTCCTTCTCCCC
AAAGAAACGC------------CGCCCAGCCGCGCGCGCCCACGCGAGGCCGGTCGCGTCTCCACGGGTCCGGTTCGTCC
CTTCGCTCGGGTAACGGAGACGGGACGGGCACGGGAAGGAAACGGC---CACCACCAGGTCACCAACCCCGCACCGCCCC
GCACAGGGGCTCCTCCCGGCCTGGGCCGCTATAAAAGGCGGGGCTCCCTCGCCTCCCAACCTCCCCTC-TTCTTCCTCGC
CAACAACGACCT----CCTCCTCCGCACCAGAGAAAAAGAAAGGGAAGCAGGCAAGGTGGAGTAGCTAGGAACCATGTCC
AACGTGCCCACCTCCCTCCGC-----------------------------------------------------------
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------------GACTCCTCCCTCACCGTCTTCCGCCTCGCCATCTCCAGCTCCGACCCCTGGCCCTTCTCTTCCTAACC
CAAACCCCGCATC----------------------CCGATCTCCCTCCCCCCTCCTCCTCCTTCCTCA--------ACAA
CTCTTCTCCGGTCCTCGCCGCCTCCGATGCACCTCAGGCAGCAGCAGCAGCAGCAGCACAGGGCGGAGATGGTTGCGCCC
AAGGGGTGCGTGACGGTGCGCGTGGGGGCGGACGGGGAGGAGCAGCGCCGCTTCGCCGTGCCGCTCGACCACCTCAAGCA
CCCGCTCTTCGGGGCGCTGCTCGACGAGGCCGAGCGCGAGTACGGCTTCAGGCACCAGGGCGCCATCGCCATCCCCTGCC
GCGTCGACCGCTTCGTCCACGTCGAGCGCCTCATCGACCGCGACCTCGGCGCGCACGGCCACCAGCTCGTCGACCTCGAC
TGCGGCGCCGCCACCGCCCACGCCCACGGCCACCTCCACCTGCCGCGCTTCGTCGGCTGCTTCCGCGCGTGACGGTGACG
ATGGCGACGCGTCGTCGGCCGCTGGATCTCTTGCTGTTTCTTTGTTAGGGTTGGTTCGTTGAGTAGTTCTCTCCCGTATG
CTGCTGGATAGTTTGTTTCGCCCTCCGGTCTCGATCGATCTCCCGTACGTATGGGTTTGTTATGCATGGTTGTTCTCCAT
TGGTTTGGTTTGTGCTGGCTGGGAGAATCGATCGGAGGACGAATTCCATGTTGATGATGATGATGAAAAATTATGATCCA
AGTGTAAAGAGATAATGTAATTGTTAGTAGCTTATTAATCCTCTCCTTTTTTCCTTCA-TCAATTTGATGCTCTCCGCAG
AAAAAGTGGA-----------------AGAATATGTGGTTGCTTGTCTACGCGATT--TCATCAAACATCTATACTACTC
ACTCTTTTGACGGGAAAT---AACGAAATTTGCCGATAAATGCATCTGAATAGATTGAAAGCAAGCAAATAATTTGTTGA
AAGTAGAACTATCTCGCGCCAATATATACATGTCAGACGGCACAATTCACGACAC-AAATTGATATGCATACGAGGTCGA
GAATGATGCGATACCAAGTTTCGACATATATTCCCTTCTCCACCTTGGTGAGCATATCCAAGTAATATTCCGGGGTTCGT
TCTTACTACTAATTGAGTAGTTATTAGTTATTACTATTATCCTAGATTAGATCTTGGTGCCAAAATTAGTTAAATGACAA
GCAATTTTTGTAACCTTGGAAGGGTGATTAAAGGTTTCACTAAGGTTATTAGTACGTGAAATATCTTACGCTTAAAAACA
AATAATAATATTCGAAANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNTGTTTTTCTTTGATAAAGGGCAAACTTTATTAACTCAAACAACCAACACTAATACACA
TAAAAAAGCTGGCAAATAGCAAAGCCTACAAGATCAAAGTTATGCCCAAGCGAGGAAAGAGAAAAGAATCAAAAGTGAAA
GCAACAATCAACAAGCACCAGCCATCTGTGACACCACATGGGCACGACATTCTTCGGCAACAATGTCTTTAGGAAGGGAA
CAGCTCTCCAACACCGCCATCATCGGATCCAATGACCAAAGTCAAGATTCTAGGTTTTCATCCTGAAGAACAAGTCCGAG
CATCTTCGAGCAATGTCTTCAACAAGGTAACGTTTCATTTCCCCTTCTTCGGCGGCACGGCTGGCCGAGTGCCTGGATTT
ACCATGACAACAACTTGTGACATGATATTGCGGAGGAAGTTGCGGGAGCGGGCGAGCAACTACTGGTAGTAAGTGACGCT
CTTGGTCATGGCGCTTCAATTTGCTGGATCCTGACGTGGATGCTGGCGTCATCGTTGATGCCCCTATAAATGAGAGCCAT
TTGAGCTCTATTTAGCCCAAGTCCGGGAAAGGTTGGTGTGTCTACGTCTCTCTACTCCCATTGAATCTTTTGGTCGAACG
ACAACCATGGGACTCCAGCGTTCGTTGGCAATAGAATGATGGTGAGGCGTTCTCCATTGGTTTGGTTTGTGCTGGGAGAA
TCGGTGGGAGGACGAATTCTATGTTGATGATGATGAAAAATTATGATCCAAGTGTAAAGAGATAATATAATTGTTAGTAG
CTTATTAATCCTCTCCTTTTTTTTTCATTTTGTCAATTTGATGCTCTCCGCACAAAAAGTGGAAGAATATATTGTTGCTT
GTCTACGCGATTTCATCAAACATCTATACTCCTCAGTCTATGGACGGGAAATAACGAAACTTGCTGATAAATGCATCAGA
ATAGATTGAGAGCAAATAATTTGTTGAAAGTAGAACTATCTCGCGCCAATACATACATGTCAGACGGCACAATTCACAAC
ACAAATTGGTATGCATACGAGGTGGAGAATGATGCGATTCCAAGTTTCGACATATATTCCCTTCTCCACCTTGGTGAGCA
TATCCATGTAATATTCCGGGGTTCATTTCTACTAATTGAGTAGTTCTTAGTTATTAGTATTATCCTAGATCAGATCTAGT
TGCCAAAATTAGTTAAACGGCAAGCAATTCTTGTCATCTTGGAAGGATGATTAAAGGTTTCATTAAGGTTATTACACATG
AAATATCTTACGCTTAAAAACAAATAATAATATAGCAAGACTATCAA
>SNPs
SSSSSSSSSSSSSSSS----------S------------------S----------------------------------
---------------------------------------SSSSSSSS---------------------------------
--------------------------S--------------------------SSSS----------------S------
--------------------------------------------------------------------SS----------
-----------------------------------S------------------------S-------------------
-------------------------------------------S------------------------------------
----SSSS--------------S----------------------------S----------------------------
-------------------------------------------------------------------------SS--S--
---------------------------------------------SSSS-------------------------------
S-----SSS------------S--------------S--------------------------------------S----
------------SSSS--------S---------------S-S-------------------------------------
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------------SS--S------------S---------------------S-------------------------S--
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---------------S--------S--------S----------------------------------------------
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------------------------------------------------------------------------S-------
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-------S-------------------------------------------------------------S----------
------------------------------------------------------------------S-------------
--S------SSSSSSSSSSSSSSSSSS----------S------------------S------------S-----S----
-----------------SSSS--S-S--S---S---------------S-SSS-----S--S---------------SS-
--S---S---------------S-S-------S-----------------------------------------------
----------------------------------------------------------------------S---------
--------S--------------------------------------------------------------------S--
------------------------SS-----------------S-----------------------S-SSS--------
---------------SSSS-----------S-------SSSSSS------------SSSS--------------------
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------------------------S--------S-----------------------------SS---------------
S------------S---S----S---S--------------------SSSS-SSSSSS-SSSSS-SSSSSSSSSSSSSSS
SSSS--SS-S-SS-------------------------------------------------------------------
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>forward_310
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--------------------------------------------------CCAAGTCAACCCCAAACCGA----------
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>reverse_2076
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---------------------------------------------------------------------------GCCTC
ACTCTTTTGACGGGA-----------------------------------------------------------------
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