>input_sequence_73898
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-ATGTCGTGGCAGACTTACGTCGACGAGCACCTGATGTGCGACATCGAGGGCCACCACCTCGCCTCCGCGGCCATCCTCG
GCCACGACGGCACCGTCTGGGCCCAGAGCGCCGACTTCCCCCAGGTCACCGCCGGCATGCCGTCCGCCTT----CAGATT
TCCTGTATGATCTCTCGTAGATTCG----TTTCTCCATGTCTCACGGTGCTGGTTGGTTTTGGTTTTTGTGTGGCTTCCA
GTTCGCGCCCGCCGAGATCACTGCCATCATGAAGGACTTCGACGAGCCGGGGCACCTCGCCCCCACCGGCATGTTCGTTG
CAGGTGCCAAGTACATGGTTATCCAGGGTGAACCTGGGGCCGTCATCCGTGGCAAGAAGGT--------ATGCATGCATG
CATCTCTCGAGTTTTCTACTAGAATTATATATGTTCTTGAAAA----------------ATTGATTGATCGATCCCTGTG
CTTCGTCATCTTACTTTGCGGCTCATCCGGCCTGCAGGGAGCAGGAGGCATCACCATCAAGAAGACCGGGCAGGCGCTGG
TGGTTGGCGCCTACGAGGAGCCCATGACCCCTGGGCAGTGCAACATGGTGGTGGAGAGGCTCGGCGACTACCTCGTTGAA
CAAGGCATGTAG--------------------------------------------------------------------
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>chr1B_1_TraesCS1B01G356700
GTCAATAGTCATGCTTAATTACTCCACAAGTTTGCTTCCTCCACAA--TTTGGAGCTCAGGAATTAACCCTTGTTTTGAA
TTGTGTTCACACGTAAATAGTAGGTGCTTCTAGCGTAGCGCTAGTTATTCCTTGTTAAGATGGGATGAGATTTGTGAGTT
TGCGTTTGTATATAGCAAT--------TGTGTGCGTGTGTGAATTGAAAACATGGCTTAAATCCACATTGTATTCTTATG
GTTTTGTCTCATAATTCTTTCTACATTTGTAAATTTGGATTAT--------CCAAGCTAGTTATTCGTCTT--TTTTTTA
AGTTGTTATACGTCATAATTTATCAAAGTGTTTTTCTAACATATGGGCGTTAAGTGTTTGGACTCATGAAAGATCAGCCA
AACAACGGCTGAGCTTAGACTTGACACTGTTGTTCACGTTTTGCTCAATTTATTTCAGCATTTTCCGAGACGTTCGTTCA
GGAGACGTTCCA------TCGAATACGAGGCATCTATAATGACTTCGTCAATCTCAAGGTGTTATGCGGGCTCAGGATCT
CAGAGGTGCTAATAGAGACAATGAGTGTGTGCTTGCATGCGTGCATTCATGGAGTGAGTGTATCTGAA-CATCCACGTTC
GGAAAAACAAAAAGCGGCCGGCGTCAAATTTGCAACTAGGCTCAACCCTGGTTTACATCGTCCCGAAATGGAGCGGCGAG
GTCCGAATATTCCAGCAAAACCGGTGCCCACGGATCGTCGGGCCCTGACGGATGAGCCAAGCCA----------GGGCAG
GTCCGCAAGCAAAGCAACCCCTGGAAAGACGGCGAGGGGCAAGGGCGCCAAGGGGCCAACGGGTGGCTGGGACGACGCGG
GGATCCGCTCTTCCGCCCCCCGCCCTCCTCTATTTATGGCGTCCACCGCCCAATCCACGCACCAGAGCCAACGAACTCCG
ATCGCCACTCCCCCAGAGAAACGCCCCT----CCTCACCTTGAACGTCCAAGGAAGCAGCACACAAGTCCGGCCAGCCAA
GATGTCGTGGCAGACTTACGTCGACGAGCACCTGATGTGCGACATCGAGGGCCACCACCTCGCCTCCGCGGCCATCCTCG
GCCACGACGGCACCGTCTGGGCCCAGAGCGCCGACTTCCCCCAGGTCACCGCCGGCATGCCGTCCGCCTT----CAGATT
TCCTGTATGATCTCTCGTAGATTCG----TTTCTCCATGTCTCACGGTGCTGGTTGGTTTTGGTTTTTGTGTGGCTTCCA
GTTCGCGCCCGCCGAGATCACTGCCATCATGAAGGACTTCGACGAGCCGGGGCACCTCGCCCCCACCGGCATGTTCGTTG
CAGGTGCCAAGTACATGGTTATCCAGGGTGAACCTGGGGCCGTCATCCGTGGCAAGAAGGT--------ATGCATGCATG
CATCTCTCGAGTTTTCTACTAGAATTATATATGTTCTTGAAAA----------------ATTGATTGATCGATCCCTGTG
CTTCGTCATCTTACTTTGCGGCTCATCCGGCCTGCAGGGAGCAGGAGGCATCACCATCAAGAAGACCGGGCAGGCGCTGG
TGGTTGGCGCCTACGAGGAGCCCATGACCCCTGGGCAGTGCAACATGGTGGTGGAGAGGCTCGGCGACTACCTCGTTGAA
CAAGGCATGTAGGCCACCCCATCAATATAACGGCGTCCACGATGATGATCAGATCACACAATTTTCAAGATTCTCTTTTA
AATATCTACGGAAATATATGTGGGCCTTTTGTTTCCCTCTTCAAGCGGCTCTGGCATCCATCGCTCATGATGACCAGTTG
CCCTAACAAGTTTCATTTGTAATGCCTTTTCGGCTTTC------CTTCTTCTTCAGTGGGTCCATTATTTTGGTTGTCGT
ATGAATTGTGTTGACAACAAATTTTGTGCTACATTTCTTTCGATTGTAAACTTATAGTACTTTTTATTTTATT-------
---TTGAAAAGGCCTCTTTGATTGCAATGCAATCGCATATATAGGTTGTGTGCAATCCCATCTATTGTCGCGGCGCCCCC
GNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTCAAGAAATTACATAGTTGCTTACAATTGGG
TCTTTCGCAAAAATGAGACGGAACTTTGCACTTTAGCCTTAAAAACAACTTGCTACCACTAGATTTTTCACACACACATT
TTGTAC---------TCATGTTGCTGCACTACGTACTGCAATACTGCTGTATGTCGTGCCACATTAAGAA-ATACATATT
ACCAGTGGGGAAATCTACGAGAATAATTCAATTGTTAACCAAGTATTGAAGCATCATGTGAAAATGAAAAAGAAACAA
>chr1D_15
--------------TTAATCACTCCACAAGTTTGCTTCCTCCACTA--TGTAT--CTCAGGAATTAACCCTTATTTTGAA
TTGTGTTCGCTCCTAAATAGTAGGTGGCCCTAGTGTAACACTAGTTATTTCTTGTTAAAATGGGTTGATATTTGTGAGTT
TGAATTTGTATATAGCAATC----GTGTGTGCGCGCGCGTGAATTGAAGACATGGCTTAAATCCACATTGGATTCTTATG
GTTTTGTCTTGTAATTCTTTCTGCGTTCGTAAATTTGGATTATGTTATATGCCAAGCTAGTCATCCATCCG--TTTTTTA
AGTTGTCACCTGTCATAATTTATCAAAGTGTTTTTCTACATATCCGCGTTACGTTGTTTGGAACCATGAAAGATCACCCA
AACAACGGTTGATCGTAGACTTGATACCGGTGTCCGCATTTTGTTGAATTTATTTCAGACTTTTTCAGGATGTCCATTCA
GTGAAAGAGACGTTTTCGTC------------------AAGACTTCGTCAATCTAAAGATGTTGTGAGCGCTCAAGATCT
CAGAGGTGCTAATGAGGGATT---AAGTGCACGTGGGTGCGTACATTCATGGAGGTGAGTGCATCACTGCATCCACGTTC
GGGAAAACAAACAGCGGCCCGCGTCAAATTTGCATCTAAGCTCCACCCCGATTTACTTCGTCTCGAAATGGAGCGGCGAG
GTCGGAATATTCCAGCAAAACCGGTACCCATGAATCGACGGGCCCTGACCGATGAGCAAAGCCAGGGCAGGGCTGGGCAG
GTCCGCAAGCAAAGCATCCCCTGGAAAGACGGCGAGGGGCAAGGGCGCCGAGGGGCCAACGGGTGGCTGGGACGACGCGG
GGATCCGCTCTTCCGCCACCCGCTCTCCTCTATTTATGGCGTCCACCGCCCAATCCACGCACCAGA-CCAACGAACTCCG
ATCGCCACTCCCCCAGAGAAAT---CCT----CCTCACCTCGAAACTTCCGTGAAGCAGCAAACGCAA--GTCCGGCCAA
GATGTCGTGGCAGACGTACGTCGACGAGCACCTGATGTGCGACATCGAGGGCCACCACCTCGCCTCCGCGGCCATCCTCG
GCCACGACGGCACCGTCTGGGCCCAGAGCGCCGACTTCCCCCAGGTCACCGCCGGCATGCCCGCCGCCTT----CAGATT
TCGTGTATGATATGATCTCGTAGATACGTTTTCCCCATATCTCACGGTGCTGGTTGGTTTTGGTTTTTGCGTGGCGTCCA
GTTCGCGCCCGCCGAGATCACTGCCATCATGAAGGACTTCGACGAGCCGGGGCACCTCGCCCCCACCGGCATGTTCGTTG
CAGGTGCCAAGTACATGGTCATCCAGGGTGAACCTGGCGCTGTCATCCGTGGCAAGAAGGT--------ATGCACGCATG
CATCTCTCGATCGTTTT-CTAGAATTATATATGTTCTTGAAAA----------------ATTGATCGATC----CCTGTG
CTTCGTCATGTTACTTTGCGGTTCATCCGGCCTGTAGGGAGCAGGAGGCATCACCATCAAGAAGACCGGGCAGGCGCTGG
TGGTTGGCGCCTACGAGGAGCCCATGACCCCTGGGCAGTGCAACATGGTGGTGGAGAGGCTCGGCGACTACCTCGTTGAA
CAAGGCATGTAGGCCACCCCATCAATATAACGGCGTCCACGA----C----GATCACACAATTTTCAAGATTCTCTTTTA
AATATCTACGGAAATATATGTGGGCCTTTTTCC-CCCTCTTCAAGCGGCTCTGGCATCCATCACTCATGATGACCAGTTG
CTCTAACAAGTTCCATTTGTAATGCCTTTTCGGCTTTC------CTTCTTCTTCAGTGGGTCCATTATTTTGGTTGTC-T
ATGAATTGTGTCGACAACAAATTTTGCGCTACATTTCTTTCGATTGTAAACTTATAGTACTTTTTATTTTATT-------
---TTGAAAATGCCTCTTTGATTGCAATGCAATCGCATATATAGGTTGTGTNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTCTTGTCCTCTTCTTTCATGGTTGCGTTT
ATAATCG------------------------------------------TCAAGAAATGAAATTGTTGCTTAGGATCGCG
TGTTTTTCAAAAATGAGACGGAACTTTGCACTTTTGCCTTAAAAACAACTTGCTACCACTAGATTTTTCACGCACACATT
TTGTATCTGGTGTATTCATGTTGCTGCACTAC----TGCAATACTGCTGCATGTCCTGCCACAATAAAACGATACATATT
ACCAGTGGGGAAATCGACAAGAATAATTCAATTCTTCACCAAGTATTGAAGCATGGTGTGAAAATGAAAAAGAAACAA
>chr1A_21
--------------------ACTCCACAAGTTTGCTTCCTTCACAATTTGGAT--CTCAGGAATTAAACCTTATTTTGAA
CTGTGTTCAGTCCTAAATAGTAGGTGCCCCTAGTGTAACGCTAGTTGTTTCTTGTTTTAATGGGATGAGATTTGTGAGTT
TGAGTTTGTATATAGCAATTGTGTGTGTGCGCGCGTGCGTGAATTGAAGACATGTCTTAAATCCACATTGGATTCTTATG
GTTTTGTCTTGTAATTCTTTCTA-GTTTGTAAGTTTGGATTACATTATATGCCAAGCTAGTCGTCTGTCTTTTTTTTTTA
AGTTGTTATCTGTCATGATTTATCAAAGTGTTTTTCTACA---------TAAGTTGTTTGGAACCATGAAAAATCACTGA
AACAACGGCCGATCCTAGAATTGACATCTATGTTCGTATTTTGCTGAATTTAT-TCAGGCTTTCCCTGGATGTCCGTTCA
GTGGGAGAGACGTTCTTGTTGATTACGAAGCGCCCGCGAAGACTTCATCAATCTCAAGATATTGTACGGGCTCAAGATCT
CACAGGTGCTAATAAAGG-TT---GAGTGTTCGTGGGTGAATGCGTTTATGGAGGTGAGG--------GCATCCACGTTC
GGAAAAACAAACAGCGGCCCGCGTCAAATTTGCAACTAAGCTCTATGCCGGTTTACATCGTCTCAAAATGGAGTGGCGAG
GTCCGAATATTCGAGCAAAACCGATGCCCATGGATCGACGGGCCCTGACCGATGAGCCAAGCCA----------GGGCAG
GTCCGCAAGCAAAGCATCCCCTGGAAAGACGGCGAGGGGCAAGGGCGCCGAGGGGCCAACGGGTGGCTGGGACGACGCGG
GGATCCGCTCTTCCGCCCCCCGCCCTCCTCTATTTATGGCCTCCACCGCCCAATCCACGCACCAGA-CCAACGAACTCCG
ATCGCCACTCCCCCAGAGAAAT---CCTCCCTCCTCACCTCGAACGCTCCGGGAAGCAGCAAACGCGA--GGCCGGCCAA
GATGTCGTGGCAGACGTACGTCGACGAGCACCTGATGTGCGACATCGAGGGCCACCACCTCGCCTCCGCGGCCATCCTCG
GCCACGACGGCACCGTCTGGGCCCAGAGCGCCGACTTCCCCCAGGTCACCGCCGGCATGCCGGCCGCCTTCCTTCAGATT
TCCTGTATGATCTCTCC-CGTAGATGCGTTTTCCCCATATCTCACGGTGCTGGTTGGTTTTGGTTCTTGTGTGGCGTCCA
GTTCGCGCCCGCCGAGATCACTGCCATCATGAAGGACTTCGACGAGCCGGGGCACCTCGCCCCCACCGGCATGTTCGTTG
CAGGTGCCAAGTACATGGTTATCCAGGGCGAACCTGGCGCTGTCATCCGTGGCAAGAAGGTATACATGCATGCATGCATG
CATCTCTCGGC---TTT-CCAAAATTATACTACCACTATTACGTGTTTTTGGAAAATTGATTGATCGTTC----CCTGTG
CTTCGTCATGTTAATTTGCGCTTCATCCGACCTGCAGGGAGCAGGAGGCATCACCATCAAGAAGACCGGGCAGGCGCTGG
TGGTCGGCGCCTACGAGGAGCCCATGACCCCTGGGCAGTGCAACATGGTGGTGGAGAGGCTCGGCGACTACCTTGTCGAA
CAAGGCATGTAGGCCA-CCCATCAATATAATGGCGTCCACGATGATC----GATCACACGATTTTCAAGATTCTCTTTTA
AATATCTACGGAAATATATGTGGGCCTTTTTTTT-CCTCTTCAAGCGGCTCTGGCGTCCATCACTCATGATGACCAGTTG
CTCTAACAAGTTCCATTTGTAATGCCTTTTCGGCTTTCCTTCTTCTTCTTCTTCAGTGGGTCCATTATTTTGGTTGTCGT
ATGAATTGTGTTGACAACAAATTTTGCGCTATGTTTCTTTCGATTGTGAACTTATAGTATCTTTTATTTTATTTTATTTT
ATTTTGAAAAGGCCTCTTTGATCGCAATGCAATCACATATAT--------------------------------------
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>SNPs
SSSSSSSSSSSSSS-----S-----------------------------S-SSSS-----------------S-------
----------S-S--------------SS----S---S-----------S--------S---------------------
--S----------------------------S-----S----------S---------------------S---------
---------SS-------------S------------------------------------S--S---------------
---------SS---------------------------SSSSSSS-SSS-S-SS--------SS------------S---
------------S-S------------S-S-----S-S-------S------------SS------SS--S--S------
-SS--S-SSS-S----------S-----S--SS-SSSS-S------------------S----S----------S-----
--------------S--SSSSSSS-S----S-S--SS-----------------SSSSS-SSSSSSSS------------
-----------S-------S------------------S----S----S-------------S-----------------
------------------------------S------S-----------S------------------------------
----------------S--------------------------------S------------------------------
------------------------------------------------------------------S-------------
---------------------SSSS---------------S------S-SS----------S--SS-SSS----S-----
---------------S----------------------------------------------------------------
--------------------------------------------------------------S-----------------
----------------S-S-SSSSS--------S----S------------------------------------S----
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-------------------------------------S--S---------------------------------------
----------SSS--S-S-----------------------------------------------S----SSSS------
---------S-----------S----------------------------------------------------------
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----------------------------------------------SSSSS-----------------------------
------------------------------S-------------------------------S-----------------
-S----------S-------------------------------------------------------------------
--------------------------S-----------------------------------------------------
---------------------------------------------------SSSSSSSSSSSSSSSSSSSSSSSSSSSSS
S-------------------------------------------------------------------------------
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---------------------------------------------------SSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS---------S-S--S--------SS--S-S-
-S---SS---------------------------S------------------------------------S--------
-----S--------------------------SSSS-------------S-----S-------S---S-S----------
---------------S--S--------------S--S-----------------SS----------------------
>forward_1008
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----------------------------CCCTCCTCACCTTGAACGTC--------------------------------
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>reverse_2055
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------------------------------------------------------ATCCCATCTATTGTCGCGGC------
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