>input_sequence_82423
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-------------------------------------------------ATGGAGGATGACAAGAAGGAGGGCAAGTACC
GCGGCGTGCGGAAGCGGCCGTGGGGCAAGTTCGCGGCGGAGATCCGGGACCCGGAGCGCGGCGGCTCCCGCGTCTGGCTC
GGCACCTTCGACACCGCCGAGGAGGCCGCGCGCGCCTACGACCGCGCCGCATTCGCGCAGAAGGGCGCCACCGCCATCCT
CAACTTCCCCGCCGAGGCTGGCAGGATGAGTGGCGGGTCTTCTTCGTCGTCGGCCGCCGCTCAGGCGGCTGCAAGCAGGC
GCGTCCCTGACACGGAGAAGGTGGAGCTGGAGTACCTCGACGACAGGGTCCTGGACGAGCTCCTCGCGGAGGACTACTAC
AGCAGCACTAAGAAGTAG--------------------------------------------------------------
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>chr4D_1_TraesCS4D01G313400
TGCACGGTGCAAGTTGATTCCCAGTGCATGCATCTCCACTGCTCAAATTCCGTCCGTCCGTCCGTCCGTGACATGCATGC
AGATTGCAA------CCTAGCTAATAGTCAATCGGAAGAAAATGACGACGACGACATAGATACACAGACCTACCTGTAAG
GTCGACCG------ATAGACGATGGAGCTCAGCTGGCTGGTGGCGCTGGCCCGCGAAAATTCTCCGTCCGTGC--GGG--
CTTGCTTTTCTCGGCTTAGTCCCGCCGTCCGGGTCGCCCC--CACGTGAACCGAGATTCCGATGCCCCCGCTTTCCAGCG
CCGGTTGGCCGACGTAGGCAACGGCATCCGTCCAGCGTCACGGCCGGCCACACACAAGGATGTAATGGAGCTCA--CGCG
CGCAGGCGCAGGCGCAGCCGCCGCCCGGCCAATCTCCACGCATC-TTTACTGTCGGGGTCATGTCC----ATCGATCATC
AGTAAATTTAAACTGACTTAGTTTTCTCGATGGATCGATCGATCGATGGGAGAATATGCAT-----ATCCTATCTCAACT
GCTTGATTGCGGCTGATTATTCGTCCATGTCGATC----GACCAGCCCGTCGCGGTAGTAGAATGGTCTAAGGCCTAGTT
TCTGAGAATGATCAGCCAAGCGCCGTAGTGCACT-AGTGCAACTATGACTTGCCTTGCGCGCGCTTGCTAGCCAGTTGCG
CTGCTGATGTTACCGTAAGGCACATACGC-----------------CGCATGATGCAACC--------CTAGCTCTCTAG
CTGCTGCTGCTGCATGCACCGCCAATTCTCGTGTATAAATAGCTGCCTAGCTGCACCTGCATATGCCGGCAGCTACATGT
ATGCAGCTAGC------------------TA--------GCTAGCAAGCTAGATACTAGTGCTATCTAGCTCCTTCTAGA
TTGCAACCTCGCAAAGATATAGCTGCATCTGCCTTGCCTGCATGCACGCGAGCTGATTAAGTGAGCGCAGCTGCCTACTT
GCTGATCCCTTCTCCT---AGCTAGCTAGCAATACCGAATTAGCATCATATGGAGGATGACAAGAAGGAGGGCAAGTACC
GCGGCGTGCGGAAGCGGCCGTGGGGCAAGTTCGCGGCGGAGATCCGGGACCCGGAGCGCGGCGGCTCCCGCGTCTGGCTC
GGCACCTTCGACACCGCCGAGGAGGCCGCGCGCGCCTACGACCGCGCCGCATTCGCGCAGAAGGGCGCCACCGCCATCCT
CAACTTCCCCGCCGAGGCTGGCAGGATGAGTGGCGGGTCTTCTTCGTCGTCGGCCGCCGCTCAGGCGGCTGCAAGCAGGC
GCGTCCCTGACACGGAGAAGGTGGAGCTGGAGTACCTCGACGACAGGGTCCTGGACGAGCTCCTCGCGGAGGACTACTAC
AGCAGCACTAAGAAGTAGCTAGCTAGCTAGCACGCACACCCGAAC---GAAGAATAAGCTACTATA----C-----TACT
AAAGCTGCTGGGAGTGAAGGAGGAGAATGGTCTTCC----TTGGTTTGGTCGGTCGGTGCATGGCAGGACTAGTCATGGC
TTGCGTGGACACAC--TCACACACGTGTAGAACAAACCACTGAC-------ACGTCCTTTGTCCTGGCGAGCCCATGCAG
CGTGCTTTCATTTGTTACCGCGAAGATGGAACGAAGTAATTAATGGGTATAT----------------------------
ATACGCAAATGAAAGTAATTTATTTT-CTGCAAAGATGTGTGTGTACGTAAAATGGTCGCATCAAATATATAGTATGCTG
CATTTACCCATGTTCTCTTTTTTCTTCCCTTGGCTATGGCTAAAAATGGTGCCTATAAATTTTGTCCTGGATTTTTCACC
AATTTCTACAAGTA-TATATCTTCTGGGAAGAAAGGGTAACAAT----------------GTCCACTCCATGCTGTGATT
TACCCACCATCG-TCAAGCTTGCTTGATCAATCGTCGAT--CTGGTCAATGTTCGGTCGCAGCTAGCAAAAAAGCTGATT
CCCCGACAGTGGCACGCACGAAAAACACAGGCCCAAAAAAGAAGTGAATCCTCGGTTTGCAGACCCGCCTTCAGAATCAT
CAGT----------ACACATCGCGGTCCTGCGTAGTAACAGCACTCTATTGATCGACCAGGCGCCATCCTGAACCGAACC
GCGTACGAGGTTAAGGGCCTCTCTGATTTTTATAGGTTTTCGTTTCGAGGATTGGAACCCTTACGAAAAT----------
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----------------------------------TTTCTTTGCCGGTCGTTTGATTTGTTATATTGAATCAT--------
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-------------------------------------------------ATAGAAGTTTTCTCTAAATATTCCTTTGTAC
TATATTTCATGTTCAA--GAGAAATTATGCATTCCCTAAATACTCTTGGAATGAATCATCATTTTT-CTTCTTTGATACA
ATTAAACAAATCAATTCCTATAGAATTTGGATAGACATGACCAAGAAAAACAGATAGACACCATATTGTAATCATGTGAT
TCTTCT
>chr4B_1
TGCACGGTGCAAGCTGATTCCCAGTGCATGCATCCCCAGTGCTCCAATTCCGTCCGTCCGTCCGTCCGTGACATGCATGC
AGATCTGATTGCATGCCTAGCTAATGGTCAAT-------AAATGACGACGACGACATAGATACACAGACCTACCTGTAAG
GTCGACCGATAGACATAGACGATGGAGCTCAGCTGGCTGGTGGCGCCGGCGTGCGAAAATTCTCCGTCCGTGC--GGGGG
CTTGCTTTTCTCGGCTTAGTCCCGCCGTCCGGGCCGCGCCCCCACGTGAACCGGGATTCCGATGCCCCCGCTTTCCAGCG
CCAGTCCGCCGACGTACGCATCGGCATCCGTCGAGCGTCACGCCCGGCCACGCACCAGGATGGAATGGAACTCA--CGCG
CG--GGCGCAGGCGCAGTCGCCGCCCGCCCAATCTCCATACATCTTTAACTGTCGGGGTCATGTCGATCGATCGATCACC
AGTAAATTCAAACTGACATAGCTTTCTCG------------ATCGATCGGAGAATATGCATTCCCTATCCCATCCCAACT
GCGTGATTGCGGCTGATTATTCGTCCATGTCGATC----GACCAGCCCGTCGCGGTAGTAGAATGGCCTACGGCCTAGCT
GCCGAGACTGGTCAGCAGAGCGCGCCCGGTAGTGCAGTGCAGCTATGGCCTGCCTTGTG---------------------
-TGGTGATGTGATCGTAAGATAGATAGATA--------CGCCTGCGCGCATGATGCAAACGCCCTAAGCTAGCTCGCTCG
CTA--GCTGCTGCATGCACCGCCAATTCT---GTATAAATAGCC----AGCTGCACCTGCATATGCCGGCAGCCACATAT
ACGCAGCT----AGCTACGAGTATCTACATA--------GCTAGCAAGCTAGATACTAGTGCTATCTAGCTCCTTCTAGA
TTATAACCTCACCAAGCTATAGCTGCATCTGCCCTGCCTGCAT----GCGAGCTGGTTAAGTGAGCGCTGCTGCCTGCAT
AT-----AGACCGACCCTCAGCAAGCTAGCAATAGCAC-----------ATGGAGGATGACAAGAAGGAGGGCAAGTACC
GCGGCGTGCGGAAGCGGCCATGGGGCAAGTTCGCGGCGGAGATCCGAGACCCAGAGCGCGGGGGCTCCCGCGTCTGGCTC
GGCACCTTCGACACCGCCGAGGAGGCCGCGCGCGCCTACGACCGTGCCGCATTCGCGCAGAAGGGCGCCACCGCCATCCT
CAACTTCCCCGGCGAGGCTGGCAGGATGAGTGGCGGGTCTTCTTCGTCGTCGGCCGCCGCTCAGGCGGCCGCGAGCAGGC
GCGTCCCTGACACGGAGAAGGTGGAGCTGGAGTACCTCGACGACAGGGTCCTGGACGAGCTCCTCGCGGAGGACTACTAC
AGCACTAAGAAGAAGTAGCTAGCTAGCTAGCACGCACACCCGAAAGAAGAAGAATAAGCTACTACTACTCC-----TAAT
TAAGCTGCTTGGAGTCAAGGAGGAGAATGGTCTTCG----TTGGTTTGGTCGGTGGGTGCATGGCAGGACTAGTCATGGC
TTGCATGGACACAC--TCACACACGTGTAGAACAAACCACTGAC-------ACGTCCTTTGTCCTGGCGAGCCCATGCAG
CGTGCTTTAATTTGTTACCGACAAGATGGAACGAAGTAATTAATGGGTATAT----------------------------
ATACGCAAATGAAAGTAATTTATTTTTCTGCAAAGACGTGTGTGTACGTACAATGGTCGCATCAAATCTATAGTATACTG
CATTTACCCATGTTCATTTTTTTCCC----------TGGCTAAAAATGGTGCCTATAAATTTTGTCATGGATTTTTCACC
AATTTTTACGAGTCTTC--TCTTCTGGGAAGGAAGGATAACAAT----------------GTCCACTCCATGCTGTGATT
TACCCACCATCG-TCAAGCTCGCTTGATAAATCGTCGACCGCTGGTCAATGTTCGGTCGCAGCTAGCAACAAAGCTGATT
CCCCGACAGTGGCACGCACGAAAAACACAGGCCCAAAAAAGAAGTGAATCCTCGGTTGCCAGCCCCGCCTTCAGAATCAT
CAGTACTTGTCACAACACGTCGCGGTCCTGCGTGGTAACAGCACTCTATTGATCGACCAGGCGCCATCCTGAACCGAACC
GCGTACGAGGTTAAGGGCCTCTCTGATTTTTATAGGTTTTCGATTCGAGGATTGAAACCCTTACGAAAAA----------
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----------------------------------TTTCTTTGCCGGTCGTTTGATTTGCTATACTGAATCAT--------
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-------------------------------------------------ATAGAAGTTTTGTCTACATATTCCTTTTACG
A--------------------AAATTATGCATTCACTAAATACTCTTGGAATGAATCATCATTTTT-TTTCTTTGATACA
ATTAAACAAATCAATTCCTATGGAAGTTGGATAGACATGACCAAGAAAAACAGATAGACACCATATTGCAATCATGTGTT
TCTTCT
>chr4A_22
---------------------CAGTGCATGCATCTCCGCTGCTCAAATCCCGTCCATCCATG----CGTGACATGCATGC
AGATGCATGTG--------GCTAATAGTCCATCATCGGGAAAAAATGACGGCGACGTAGATACACAGACCTACCTGTAAG
GTCGACCGATAGACATAGCCGATGGAGCTCAGCTGGCTGGTGGCGCCGCCGGGCGAAAATTCTCCGCCCGTGAGGGGG--
CTTGCTTTTCTCGGCTTAGTCCCGCCGTCCGGGCCGCGCCCCCACGTGAACCGGGATTCCGATGCCCCCGCTTTCCAGCG
CCGGTCGGCCGACGTACGCATCGGCATCCGTGGAGCGTCACGGCCGGCCACGCACAAGGATGGAATGGAGCTCACGCGCG
CG--GGCGCAGGCGCAGCCGCCGCCCGCCCAATCTCCTTACATCTTTAACTGTCGGGGTCATGTCGATCGATCGATCACC
AGTAAATTTAAACTGACGTACTTTTCTCG------------GTCGATCGGAGAATATGCATTCCCTATCCCACCCCAACT
GCTTGATTGCGGCTGATTATTCGTCCATGTCGATCGATCGACCCGCCCGTCGCGGCAGTAGAATGGTCTACGGCCTAGCT
TCCCAGAACGGTCAGCAGAGCGCGGTAGTGCACTG------------------CTTGTG---------------------
-TGGTGATGTGATCGTAAGATAGGTAGATAGATAGATACGCCTGCGCGCATGATGCAAACGCCCTAAGCTAGCTCGCTCG
CTA--GCTGCTGCATGCACCGCCAATTCT---GTATAAATAGCC----AGCTGCACCTGCATATGCCGGCAGCCACATAT
ACGCAGCTAGCTAGCTACGAGTATCTGCATAGCTAGCTGGCTAGCAAGCTAGATACTGGTGCTATCTAGCTCCTTCTAGA
TTATAACCTCACCAAGCTATAGCTGCATCTGCCCTGCCTGCAT----GCGAGCTGGCTAACTGAGCGCTGCTGCCTGCAT
ACAGTACAGACCGACCCTCAGCTAGCTAGCAATAGCAC-----------ATGGAGGATGACAAGAAGGAGGGCAAGTACC
GCGGCGTGCGGAAGCGGCCGTGGGGCAAGTTCGCGGCCGAGATCCGGGACCCGGAGCGCGGCGGCTCCCGCGTCTGGCTC
GGCACCTTCGACACCGCCGAGGAGGCCGCGCGCGCCTACGACCGTGCCGCATTCGCGCAGAAGGGCGCCACCGCCATCCT
CAACTTCCCCGGCGAGGCTGGCAGGATGAGTGGCGGGTCTTCTTCGTCGTCGGCCGCCGCCCAGGCGGCCGCGAGCAGGC
GCGTCCCTGACACGGAGAAGGTGGAGCTGGAGTACCTCGACGACAGGGTCCTGGACGAGCTCCTCGCGGAGGACTACTAC
AGCAGCAGTAAGAAGAAG-----TAGCTAGCACGCACACCCA----AAGAAGAATAAGCTACTGTA----CTATAGTACT
AAAGCTGCTTGGAGTGATGGAGGAGAATGGTGTTCGATCGTTGGTTTGGTCCGC----GCATGGCAAGACTAGTCATGGC
TTGCATGGACACACGCTCACCCACGTGTAGACTAAACCACTGACACGTACTACGTCCTTTGTCCGGGCGAGCCCATGCAG
CGTGCTTCAATTTGTTACCGCGAAGATGGAACGAAGTAATTAGTGGGTATATTACATATACTTGGCTACCAAAAACTATG
ATACGCAAATGAAGGTAATATTTTCT-CTGTAACCATGTGTGTTTACATAAAATGGTCGTATCCAATCTACCA-------
CATTTACCCCTGCCCTCTTTTT-----------------------------CCTATATATTTTGACATGGAAG-TTCACC
AATTTGTACTGGCAGTATATGTTCTGAGAAGGAACGATAGCAAATTATAACAGTGTACACGTCCCCTCCATTCTGTGATT
TACCCACTATGCATCAAGCTTGTTTGATCAATCATCTATCGCTGGTCGATGTTCGGTCGCAGCTAGCAAAAAAGCTGATT
CCCCAACAGTGACACGCACGAAAAACACAGGCT-AAAAAAGAAGTGAATCTTCGGTTGCCAGACCCGCCTTCAGAATCAT
CAGTACTTGTCT-AACACATCGCGGTCCTGCGTCGTAGCAGCACTCTATCGATCGACCAGGCGCCATCCTGAACCGAACC
GCGTACGAGGTTAAGCGCCTCTCAGATTTTTATAGGTTTTCGA-----GGATTGAAACCTTACGACAATTTTCTTTTCAG
TTTAACTAAATGACAGGTGGACTGATTTTCGAATTGAGGTCAGTCGATTTTTGAGAGTTTGCCGGAGTGAGCCCGAGGGA
AGGAAGGGGCTCGCCGGAGTACCCTATTATCTATCTTACGGTTTATTTAGGGTGGGGGCGGTGGTGTGGGGCTTCGCCNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
CGGGGCAGTGCGGGGTGGTTCCGGTGAGGGCGGGGCAGCGGCCACGGATGGTGGTGGCCAGCGGTTCGGCTAGTGGAACG
CTGGGAGAAGAAGGAAGAAGAAGGGCCGCGGGCTGTTAGATCTCCATCCGACGTCTAGAATGAATCAACTGGCCGGATTT
GAAAAACCAATCGACTGACGTGTAACCGCACCCTTTTCTTCGATGGTCGTTTGATCTGTTATATTGAATCATGCTAGCAA
ATATGCCCGTGTGTTGCAATAGGGAGTAATTTTTTTATCTAAGCCGTTATCATTTCGGCTCAATTTTAATTTTGACTCGT
CATATTGATGGCAAGCACCTACACCCACACTCAGTCAGTACCTTTGTGGTGTCGTTTGACACTAAGGAGGCCGCGTCTAT
AGATTAAGTTTATACTAGAAATCCTACATGTATCACCATCACATGCAACAGATGGAAGACAAATTAAGATTGTATTTATC
GGTTGCACTATGAACGTGCATGACTATCACACAAATAGTTCGGATATTTTTGAAATAAACATTCATGTATCTGATATTCA
TGAATTTGATAAGTGTATGTACATCCTATAAAAATTGTTTGTGTATTCACTATAAAAAAAGTGTACTCCGATGGTAAGTA
CGCGCGCGGATTTTGTAAAGAAAAAGTATGTACGTAAGGTCTTATCTCATGAAACATGTACAAAAAAAGAATCTGGTGCA
AGTACAACATACCCAAGGATTATAATCTTTCCCAATTATTAACGTTCAATTGTACATATTGTAATACTGATCTGCGTCGA
TATGAAATAAAGGCGGATCATGCGCCATTGATTAACATTGTATCCTAAATATAATTTTAAAAATATTTAAAATATAAGAT
AACATCATATTCAAATTCTACATATTTTTTAATCAAATTTCATATATAACATGTTAAAATCGGAGTTAAGGTTTAAAAGA
TATGGTTATTTGAAAATATTTATTTATTTTTAATAGACTGCGCTATGATTACCGTAGATATCAGGGGCATTTATATTAAA
CTGCAAAAAACGACTCACTATGCCTTAATTCTGGACTGCGGGTTAATTAATGTAAAATCCAGAGGTTTTTGTGTAAACAG
CAAAAAACGGTTCGTTCTGACTTAACGATGAACTGCGGGTTAATTATTCAAAAAGACATGACAGACGACCAGAAGCAATC
GATGCTTTATTATATATATATATATATATATATATATATATAGGGACAGATATAAGTCTTCCTTACATATTCCTTCGTAC
AATATATTTCATATTCATGAGAAATTTTGCATTCACTAAATACTCTTGGAATGAATCGTTTTTCTTCCTTCTTTGATACA
ATTAAACAAATCAATTCCTATAGAATTTGGATAGATATGGCCAAGGAAAAAAGATACACACCATATTGTAATCATGTGTT
TTTTCT
>SNPs
-------------S------------------------------------------------------------------
----SSS-S------------------------SSSS-S-----------------------------------------
----------------------------------------------S---SS----------------------------
---------------------------------S---S---------------S--------------------------
-----S----------S---S-----------S------------------S----------S-----------------
--SS-----------------------S----------SS-------S-----------------S------------S-
-----------------S-----------SSSSSSSSSSSS------S----------------------S---S-----
----------------------------------------------------------------------S-------S-
--S-------S-----SS-----S-----------------S-----S-S-------S-SSSSSSSSSSSSSSSSSSSSS
S--S------S-S------SS-S---SSS-----------------------------S----------------S--S-
--SSS------------------------SSS-----------SSSSS-------------------------S----S-
-S------------------------------------------------------------------------------
--SS------S-S---S----------------S---------SSSS--------S------------S-------S-S-
S-S-SS-SSSS-SS-S------------------S-SSSSSSSSSSSSS-------------------------------
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--------------------------------------------S-----------------------------------
-----------S---------------------------------------------------------S--S-------
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-------S------------------------------------S-----------------------------------
---------S-------------------------S------------------S-------------------------
----S---------------------------------------------------------------------------
--------S-----------------------------------------------------------------------
-------------------------------------------------------------------S--------S---
------------------------SSSSSSSSSSSS------------------------------S-------------
-----S---S---------------------S----S-------------------------------------------
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---------------------------------------------------------SS---------------------
---------------------------------S----------------------------------------------
------------------------------------------S-----------S-------------------------
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-----------------------------------------------------------------S--------------
S----S-SSSS-SSSS------------------S---------------------------------------------
------------------------------------------------------------------------------S-
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>forward_1048
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--------------------------------------------------------------------AGCTGCCTACTT
GCTGATCC------------------------------------------------------------------------
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>reverse_2139
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----------------------------------------------------------GCAGACCCGCCTTCAGAAT---
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