>input_sequence_87500
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------------------------------------------------------------------ATGGGGAGTGTGAG
GAGCCAAGGCAAGCAAGGGGGGAGGGTGAGCAGAGCTCTGAAGGAGCACAGAGCCAGGCTCTACATCATCCGTAGGTGCA
TCGTCATGCTCCTTTGCTGGCATGACTGA---------------------------------------------------
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>chr5B_1_TraesCS5B01G177000
GTATTAAC-AGAGGCTCAGAAATCAACATGGGGAGAACCCTAGAAAGTGGCACACAGGAGCAGCAGACACCCCCTGCACA
AAAAAGTGCCCTGTGTTTTGACCAGAAACTAGGCAAGATACATGGAAATGCAGTAAAGGGCGCAGCATCAAACGGCTACA
ATGTCCA---CAAGACAAGCACCTCAACCAAAGCACGCACACAG----------------AGGGCTTTTTTTCATTTCTA
ATCATACGGAATAAGTACACTCAAAAGTGCTTTCCAGTCAAAAGATACCCCGGCTGCACGGATGATCCGAGTACTCATTC
CATC---CTTCCTAGCAGCTTCCGAACAAATCGAGGCGACACAAGGAAATCTCCAAGATACTTGAATATTAGATCTCCAT
AAACTCTTTCCAACTCTTTAGCGGCACAATCTACCGACAAGAGGATATACTACAGTACT--GCTACCACATAATACTGTT
AATTAATCAAGTCCAAGAAGATCTTGGCAATGCAAGAGGATCGCTAGTGTTCTCCCAAGGAAGATCAAACAGACAAATTA
CAGTGGTGTAAGATATCCAAGTACCAAGATAGACAAGCAAAAAAAAAAGAGAAGGGAATAAATTATGATACCAGCCGCAA
GCAGTAGTGCCAGATACCAAGAACCTTCATCGGAGCCATGCCGAACCGCTACTGAATCTGCAGATTTCAACACGTATGCG
GCAGGATGAGCTGTCTGTTATCCGAAACGATCGTATCCGTCAATAAGATCAAGCTTTTTGTCGGCGACAGGAACAATAAC
CCACATTCAGATGCAGAGATTTGTCCCCTGAGATTAAATAAAAAGAGGAAATGGAGAATTAGCGCGGTTGCATGGGAGGA
GGGGCACTGCATGCTTGCCTCCTCTATAAAAGCCCAGCCCCCGGCCTTCCCAGTTCCATACCACAGCAAGCTCCAGCCAG
GGATCTGATC-ACACAGAGAGCGAACTCTCCTGCTTGCATCTCATCTCTTCAGTTCATCAAGCAAAATGGGGAGTGTGAG
GAGCCAAGGCAAGCAAGGGGGGAGGGTGAGCAGAGCTCTGAAGGAGCACAGAGCCAGGCTCTACATCATCCGTAGGTGCA
TCGTCATGCTCCTTTGCTGGCATGACTGAGATCCAAGCTGCATTC----TCCTCCATAGAACCCATCAAGTCAAGGG-TC
GATGCATGGAGAAGTCACACTTAGATAGGGAAGTATCATCAGTTAGTTAGGACTTAGAGTAGAAGTAGAAGTTAGGAAGG
AACTCCCATG----CTCATGGCATATTGCTCTCAAGAAAGCTTGGTAGACTAGACATTCTATCAGTCGTTTATTTCACCA
TGAGTTATTCGTATTTA-TTTTCCATTTTTTCTCCACCTTTTCTCCGATGTGCCGTCCCTTAGGCAGTGGGATAT--GTG
GCTGTTGTATCTTTTTGGACATGATGTGTATTGTACCCATGTCTGGTCTGATAGAGATGATTCAGTGAAAGAATCAAAGT
CGAACATGAACCCTTGTCCTCCTAATATGAAATGAATATATATTTTATCTTCTTCGGTAGTGGAGGCAATATGAGTTATA
CGACTCGAGCTGTCGATAAACTTTTAATCCTAATATGCATGCCTCGCTATATTCTGGAGCTCGCATTCTTT-ATAGAAAT
AACCATGTGTGTGTGGGCCCACGCACGCGAGGGGCGTGAGGTGGGGATAGAACATTACCTCAATTTTAAAAAAGATGC--
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-----------------------ATGAAAAAAAAGCCACACAACTTCTATACACCAAGAATAAATCACTAGGGTGCAC--
--AGTGTAGGGAATGAACAGGAAGTCCACAAATGCACCAACTGTAATAACCATGTATATATATATA-CTTATTGGTTGTC
AGAAA---------------------------------------------------------------------------
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----------------------------------------------------------TTTTGTCCAGGCCAATGATGAG
TTGAAGTGCATAAGAAAACAGCTTCATATAATGTCTTAAGCAGCAAACAACGGAGCCTACCAGGGCCTACTATTATATAA
GCAGTCCTTTATTGTCCTTTTGTACTGTG-----GTGTACTGCATCCTACGCATCATAGCTCAATTAACGTTTGTACACG
TACGCATCATAGCTGAATTAACTTTTGTACACGTACTAGCAGGCAGCATAGCTGAACTAGTTTAGAGCCTAAGTATCCAT
CCATCAGAAG
>chr5D_2
TATTAACAGAGAGGCTCAGAAATCAACATGGGGAGGACCCTAGAAAGTGGCACACAGGGGCAGCAGACAACCCCTGCACA
AGAAAGTGCCCTGTGTTTTGACTGGAAACTAGGCAAGATAGATGGAAATGCAGTAAAGGGCGCAGCATCAAACGGCTACA
ACGTCCA---TAAGACAAGCACCTCAACCAAAGCACGCATACACACAGAGGGCTG-------------TTTT--TTTCTA
ATCATACGGAATAAGTACACTCAAAAGTGCTTTTCAGTCAAAAGATATGCCGGCTGCATGGATAATCCGAGTACTCATTC
CATCCTGCTTCCTAGCAGCTTCCGAACGAATCGAGGCGACACGAGGAAATCTCCAAGATACTTGAATATTAGATCTCCAT
AAACTCTTTCCAACTCTTTACCGGCACAATCTACCGACAGGAGGATATACTACAGTACT--GCTACCACATAATACTGTT
AACTAATCAAGTTCAAGAAGATCTTGGCAATGCAAGAAGATCGCTAGTGTTCTCCCAAGGAAGATCAAACAGACAAATTA
CAGTGGTGTAAGATATCCAAGTACCAAGATAGATAAGC-AAAGAAAGAGAGAAGGGAATAAATTATGATACCAGCCGCAA
GCAGTAGTGCCAGATACCAAGAACCTTCATCAGAGCCATGCCGAACCGCTACTGAATCTGCATATTTCAACACGTATGCG
GCAGGATGAGCTGTCCGTTATCCGAAATGATTGTATCCATCAATAAGATCAAGCTTTTTGTCGGCGACAGGAACAATAAC
CCACATTCAGATGCAGAGATTTGTCCCCTGAGATTAAATAAAAAGAGGAAATGAAGAATTAGCACAGTTGCATGGGAGGA
AGGGCACTGCATGCTCGCCTCCTCTATAAAACCCCAGCCCCCGGGCTTCCCAGCTCCACACCACAGCAAGCTCCAACCAG
GGATCAGATCTACACAGAGAGCAAACTCTCCTACTTTCATCGCATCTCTTCAGTTCATCAAGCTAAATGGGGAGTGTGAG
GAGCCAAGGCAAGCAAGGGGGGAGGGTGAGCAGAGCTCTGAAAGAGCATAGAGCCAGGCTCTACATCATCCGTAGGTGCA
TCGTCATGCTCCTTTGCTGGCATGACTGAGCTCCAAGCTGCATTTTCGTTCCTCCATGGAACCCATGAAGTCAAGGG-TC
CATCCATGGAGAAGTCACACTTAGATAGGGAAGTATCATCAGTTAGTTAG------GAGTAGAAGTAGAAGCTAGGAAGG
AACTCCCATG----CTCATGGCATATTGCTCTCAAGAAAGCTTGGTAGACTAGACATTCTATCAGTTGTTTC-TTTACCA
TGAGTTATTAGTATTTATTTTTCCATTTTTTCTCCACCTGTTTTCCCATCTGCCATCCCTTAGGCAGTGGGATATATGCG
GCTGCTGTATCTTTTTGGACATGTTGTGTACTGTACCCATGCATGGTCTGATAGAGATGATTCAGTGAAAGAATCAAAGT
CGAACATGGACTCTTGTCCTTCTACTATGAAATGAATATATATTCCATCTTCTTTGGTTGTGGAG---------GTCATA
CAGCTTGAGCTGTCGATAAACTTTTAATCCTGGTATGCATGTCTCACTATATTCTGGAGCTCGCAATATTTCATAGAAAT
AACCATGTGTCTGTGT-------------------GTGGGGTGGGGATAAAACTTCACCTCGATTTTTAAGAAA------
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---------------GAACAATGATAAAAAAAAAGCCTCACAACTTTGATACACCAAGAATAAAGCACTAGGGTGCACGT
ACAGCGTAGGGAGTGAACAGGAAGTCCACAAATGCACTAAATGTAATAACCATATATATATATACTGCTTATTGGTTGCG
AGAAA---------------------------------------------------------------------------
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----------------------------------------------------------TTTTGTCCAGGTCAATGATGAG
TTGAAGTGCATAAGGAAATAGCTTCATAG--TGTCTTAAGCAGCAAATAATGGAGCCTATG------------------A
GCAGTCCTTGATTGTCCTTTTGTACTGTACTGTAGTGTACTGCATCGTACGCATCATAGCT-------------------
----------AGCTGAATTAACTTTTGCACACGTAGGCGGCATAG-----------------------------------
----------
>chr5A_2
TATTAACAGAGAGGCTCAGAAATCAACATGGGGAGAACCCTAGAAAGTGGCACACAGGGGCAGCAGACAACCCCTGCACA
AGAAAGTGCCCTGTG-TTTGACTGGAAACTAGGCAAAATACATTGAAATGCAGTAGAGGACGCAGCATCAAACGGCTACA
ATGTCCAATATAAGACAAGCACCTCAACCAAAGTGCGCGCACACACACACACATAGACATAGGGCTGTTTTT--TTTCTA
ATCATACGGAATAAGTACACTCAGAATTGCTTTTCAGTCAAAAGATATGCCGACTGCACGGATGATCCGAGTACTCATTC
CATCCTGCTTCCTAGCAGCTTCCGAACGAATCGAGGCGACACGAGGAAATCTCCAAGATACTTGAATAC--GATCTCCAT
AAACTCTTTCCAACCCTTTACCGGCACAATCTACCGACAAGAGGATGTACTACAGTACTCTGCTACCACGTAGTACTGTT
AATTAATCAAGCCCGAGAAGATCTTGGCAATGCAAGAAGATCGCTAGTGTTCTCCCAAGGAAGTTCAAACAGACAAATTA
CAGTGGTGTGAGATATCCAAGTACCAAGATAGATAAGC-AAAAAAAAAGAGAAGGGAATAAACTACGATACCAGCCGCAA
GCAGTAGTGCCAGATACCAAGAACCTTCATCGGAGCCATACCGAACCGCTACTGAATCTGCAGATTTCAACACGTATGCG
GCAGGATGAGCTGTCTGTTATCCGAAACGATCATATCCGTCAATAAGATCAAGCTTTTTGTCGGCGACAGGAACAATAAC
CCACATTCAGATGCAGAGATTTGTCCCCTAAGATTAAATAAAAAGAGGAAATGAAGAATTAGCGCGGTTGCATGGGAGGA
AGGGCACGGCATGCTCGCCTCCTCTATAAAAGCCCAGCCCCCGGCCTTCCCAGTTCCACGCCACAGCAAGCTCCAACCAG
GGATCAGATC-ACACAGAGAGCAAGCTCTCCTGCTTTCATCACATCTCTTCAGTTCATCAAGCAAAATGGGGAGTGTGAG
GAGCCAAGGCAAGCAAGGGGGGAGGGTGAGCAGAGCTCTGAAAGAGAACAGAGCCAGGCTCTACATCATCCGTAGGTGCA
TCGTCATGCTCCTTTGCTGGCATGACTGAGCTTCAAGCTGCATTC----TCCTCCATGGAACCCATCAAGTCAAAGGGTC
CATGCATGGAGAAGTCACACTTAGATAGGGAAGTATCATCAGTTAGTTAG------GAGTAGAAGTAGAAGCTAGGAAGG
AACTCCCATGCATGCTCATGGCATATTGCTCTCAAGAAAGCTTGGTAGACTAGACATTCTATCAGTTGTTTC-TTTACCA
TGAGTTATTAGTATTTATTTTTCCATTTTTTCTCCACCTGTTTTCCCATCTGCCACCCCTTAGGCAGTGGGATAT--GCG
GCTGTTGTATCTTTTTGGACATGTTGTGTACTGTACCCATGCATGGTCTGATAGAGATGATCCAGTGAAAGAATCAAAGC
CGAACATGGACTCTTGTCCTTCTACTATGAAATGAATACATAGTATATCTTCTTTCGTTGTGGAG---------GTCATA
CAACTTGAGCTGTCGATAAACTTTTAATCCTGATATGCATGTCTCGCTATATTCGGGAGCTCGCAATATTTCATAGAAAT
AACCATGTGTCTGTGT-------------------GTGGGGTGGGGATAAAACTTCACCTCGATTTTTAAGAAAGAACGA
TAAGGACAGACCCAGTGCATAGAAGCTCCCACACAAGGTGGGGTCTGGGGAGGGATTACAGGAACCTAGTCTTACCCTTG
CAAAGTGCAATGCAGAGAGGCTGGTTCGAACCCAGGACCTCTTGGCACAAGTGGGGAGGACTTCACCACTGCGCCAGGCC
TGCCCTCTTAAGAAAGAACGATGATAGAAAAAAAGCCTCACAACTTTGATACACCAAGAATAAAGCACTAGGGTGCACGT
ACAGC-TAGGGAATGAACGGGAAGTCCACAAATGCACTAAATGTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTTTTGTCCAGATCAATGATGAG
TTGAAGTGCATAAGAAAATAGCTTCATAG--TGTCTTAAGCAGCAAATAATGGAGTCTATG------------------A
GCAGTCCTTGATTGTCCTTTTGTACTGTACTGTAGTGTGCTGCATCGTACGCATCATAGCT-------------------
----------AGCTGAATTAACTTTTGCACACGTAGGCGGCATAG-----------------------------------
----------
>SNPs
SSS-S-SS--------------------------------------------------S----------S----------
-S--------------------SS--------------------------------------------------------
----------S--------------------------------S----------------------S-----SS------
---------------------------------S-------------SS-------------------------------
---------------------------S--------------S-------------------------------------
--------------------S-----------------------------------------------------------
-------------------------------------S------------------------------------------
---------------------------------S----S-----------------------------------------
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-----------------------------------------------------S--------------------------
S--------------S------------------------------------------S----------------S----
-----S----------------S-------------S----S--------------------------------------
------------------------------------------S-------------------------------------
------------------------------S--------------------------S----------------------
S-------------------------------------------------SSSSSS---------------S--------
------------------------------------------------------------------S----SS--S----
---------S-----------------------------S--S---S--S----S-----------------------S-
-----------------------S------S----------SS-------------------------------------
--------S--S--------S---S-------------------S---------S---S------SSSSSSSSS--S---
-S---S-------------------------S---------S-----------------------S-S------------
----------S----SSSSSSSSSSSSSSSSSSSS---S----------S---S-S-----S-----S--S--SSSS---
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-------------------------S-----------S--------SS----------------S---------------
----S--------------------------------S--S------------S----------SS------------SS
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---------------------------------------------------------------------S----------
------------------S---------SSS----------------S--S--------SSSSSSSSSSSSSSSSSSSS-
---------S------------------S-----------------S--------------SSSSSSSSSSSSSSSSSSS
SSSSSSSSSS-----------------S-------SSS-SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSS
>forward_104
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----AGTGCCCTGTGTTTTGACCA--------------------------------------------------------
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>reverse_2589
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----------------------------GGTGTACTGCATCCTACGCA--------------------------------
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