>input_sequence_63511
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-----------------------------------------------------ATGGCGGTCATGGACCACGACAACGGT
TCTGTGCGCGCACCGGCACCGGCGCCGAGGAGTCAGCCCTCGTACTCCTGCAGCGGCGGCAGCGTCGAGACCACTCACGA
CCACAAGCTTTCCCACTCCGACTCCTTCTGGACGCCGGCCGAATCGCTGCGCTCGTCGTCCGCTTCGTCGTCGTCCCCAC
CTCTATCCAGCAGCTCGTCGTGCGAGAGCATTCCCGCACTCGACCTTGACCGGCACTCATCCTTGTCCTCCACATCCTCC
TACGAGAGCTTGCACCACGTCGAGGCGGCGGCGGACCACGACCATTCTTCCTCTCCCGACGAGTTCATGCCGGCAACGCT
GCCGCCGGCAGTCCAGACGATGATGGCGCAGGGGCAGCCCGCTGGGTACGACCCGAAGAGGCTCCCTTCATCGATGTTCC
GCACGCAATCCACGTGCCCCGCCCAATGGAGCGCCACCTCGAACGACCAGCTGTTCAGCATCCAGCTGGAAAACTCCGGC
GGGGACGGCCCGCTTTACCTTGTCGGCGACCTCTACTACGACGACGCTGGGGTGTTCCACCGCGTCTCATCCGTCGCGAG
GCTGCCGGCCGTCCCAGAGATGTCGACAGGAAACTCCAGCCGGAGTTTGTGCGTGAGGGATGACTGCGCGGGGTGCAGAA
CAAGCATGAACAAGAAGTCCGTCAGGTTCGCCACCGCCGATGGCGTCGCCGGCCCGCGCAGGTACACGGTCGTCTTCCCG
ACGCGTAGTATCTCGCATGGTTTGCACTGCGTGCGCG--GTTTCTATGTATCCAAT------------------------
-----------------------------------------------------------GAATACCTGCTAATTGTGTCC
CTCGTCGTCCTGACCTGCGAATGTTGGCTTCAATTGCAGTCTTCCGGCCGCGTTGGAGGAGACGGACGCATCGGCGGCGG
AAACTGGCGCGGCGGCGGAGGCTTGTTGGTGCTGTTGGCCGTCGATGTGGTGGCCAAGCTGCGCGTGCCGCGGATGCGAC
TGCCGATGGTCCTGA-----------------------------------------------------------------
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>chr1B_1_TraesCS1B01G144200
AAGGTGATGACTGCTTCTGTGATCATGCACAACATGATCATTAAGGATGAGCGTAATGGCAGCATCTACGACCAAGGGTT
TGATTTCCAGGGTGAGAATGTTGAGCCCGAGCACCCACCTCCTGCAACCTTTGAACAGTTTGTCCAATTTCATCGTGAGA
TGCGTGATCGGAACACTCATACGCAGCTGCAAGATGACTTGGTTAAGCACATGTGGAATCACATTGGCAATCAGTAGATC
TATCGGTTTAATATCTTTCCATGTGCACAAACTTTGAGT---------AGACTATTTGATATTTTTAAAATTTTAATTAG
ATTGTAATAAAAGACTATTTTGAACATGTTTTTATGTTTGATCTAAACTATTTTGTTGTGCTTAATTTTATAGTACTTGA
CCTT----CGGATAAGATGAAACATAAGTCCGGGTGAACACGGTTTCATTGCCGCTTTAAAAACGAACGAAATCCGGACA
AAACGAGCGTCCGTTTAAGCTTATTCGGGACAAACCAGTTCGTCAATATGGCCGGAATATGTGGATCGCAAGTTTTGTTA
CGTCGCTTTTTCCTGGCCAAAAGTAGGTTGGGCTACCAGCAAACGGCAGCGCCTAAATTTCCCTGGAATAAACGGTCTGT
CCTCTTCCCCGTTCGTCGATCCCAACTCCCAAGCATATAAAAGCGAGGCCGGCTATTGTTGTCTCTTGTCGGAGCTCCAT
TTCTTGGATTTTCCTTGCCGGCCTCTCGCCGCGGAGTTCCGACCAATCCCATATGTGCCCGTTTAGCTCTTCACAGCAGG
TAGGATGGGAGTATCATGTTTGGAGATTTGTTCTCTCAATTTCGATTTCATTTCTTCTGTTCTCGCTTCCAAATGACAAG
ATTTGATTTGTTTTCTCTCGTACGTGTAGATCTGCGGCGTCGTGACGCCGCCTTCTCCATCGTTGATCCAGAACGGACTC
GACGAACCAATTAATCATCCCGAGTCACGATCACGACCTCGCGTGACGCAGCCATGGCGGTCATGGACCACGACAACGGT
TCTGTGCGCGCACCGGCACCGGCGCCGAGGAGTCAGCCCTCGTACTCCTGCAGCGGCGGCAGCGTCGAGACCACTCACGA
CCACAAGCTTTCCCACTCCGACTCCTTCTGGACGCCGGCCGAATCGCTGCGCTCGTCGTCCGCTTCGTCGTCGTCCCCAC
CTCTATCCAGCAGCTCGTCGTGCGAGAGCATTCCCGCACTCGACCTTGACCGGCACTCATCCTTGTCCTCCACATCCTCC
TACGAGAGCTTGCACCACGTCGAGGCGGCGGCGGACCACGACCATTCTTCCTCTCCCGACGAGTTCATGCCGGCAACGCT
GCCGCCGGCAGTCCAGACGATGATGGCGCAGGGGCAGCCCGCTGGGTACGACCCGAAGAGGCTCCCTTCATCGATGTTCC
GCACGCAATCCACGTGCCCCGCCCAATGGAGCGCCACCTCGAACGACCAGCTGTTCAGCATCCAGCTGGAAAACTCCGGC
GGGGACGGCCCGCTTTACCTTGTCGGCGACCTCTACTACGACGACGCTGGGGTGTTCCACCGCGTCTCATCCGTCGCGAG
GCTGCCGGCCGTCCCAGAGATGTCGACAGGAAACTCCAGCCGGAGTTTGTGCGTGAGGGATGACTGCGCGGGGTGCAGAA
CAAGCATGAACAAGAAGTCCGTCAGGTTCGCCACCGCCGATGGCGTCGCCGGCCCGCGCAGGTACACGGTCGTCTTCCCG
ACGCGTAGTATCTCGCATGGTTTGCACTGCGTGCGCG--GTTTCTATGTATCCAAT------------------------
-----------------------------------------------------------GAATACCTGCTAATTGTGTCC
CTCGTCGTCCTGACCTGCGAATGTTGGCTTCAATTGCAGTCTTCCGGCCGCGTTGGAGGAGACGGACGCATCGGCGGCGG
AAACTGGCGCGGCGGCGGAGGCTTGTTGGTGCTGTTGGCCGTCGATGTGGTGGCCAAGCTGCGCGTGCCGCGGATGCGAC
TGCCGATGGTCCTGAATTTGGAATGGGTAGGGAAGTTTGGACATGTCGAATCCATTGAACTCCATGTTGTTGATCGGCTG
TGGAA-GGGTGCACATAGATTGGTAGGCGTCTTGACGTGTTCTTACGTTGTAAGAGCATCTCCAACGGCCGCACAAAAAA
TCCGCGCCCAATAAACGTTATAGCACGCCACCATAGTACTTTTAAAGCGTCGGGACCAACTTTGCTTTAGCAGGTGCCCA
AAAACACGCGCCCAAAAAACAGACAGTGCAAATTGTGAAGCGCGCGCAATCCGACGCCCTAAATATGCTGCGCGCCATTG
CGTTTTTCAGCGTGCGCCCAAAAACTTTTAGCGCTACAGCTTCTGCTGGAGCTGACCGGCGCCCAAAAAAACAAACTTTT
AGCGCGGAGAGCTCTTTTTGGGCGCCTGTTGGAGATGCTCTAATAAAAGAATTTGCGAGTTGCGGCAAGGAAACAAAACA
CAAATGCTGC---CTAAAGGCAAATGGGCGAGGCTATCG--------------------------GGTCAGTCGATTTTT
CAAACGTACGATCGAAATCTAACGGCACCCGGCCTTTCTTCTACCTCCATCTCTTCTTCTTCTCTAGCCGCCGCCCGGGC
CGCCGGCCAAACCACATGCGACCACCACCCGCGCCCGCGCCGCCTCGCCGCCCCACCCTCCCCGAAACCGCCCCCCACCG
CCGGTCTAGTCGCTGCCCCCGACCATCCCTCTAGGCCGGCCCTCGTTTAAGTTTTG-CTCCGACGAAGTGCACCACCGC-
-----------------------CCCGCCACCGACGGTCTAGCCGCTGTCCCCGGCCATCTCTCTAGGCTCGCCCTCGTT
TAAGTTTTTTCTTCGGCGAAGTGCACCACCGCCCCACCACCGCCGCCGTCCACCACCGCTCCCACCCTGAACCCTAAGTT
AGATACTGGGGTAGCCCTCCGGCGAGCCCATTCCTTCTCCTTCCTTACCTCTGGCTCACTCCAGCCATCTCTCGAAAACC
GACTGACCCTATTTCAAAATCAGTCGATTG
>chr1D_2
-AGGTGATGACTGCTTGTGTGATCATGCGCAACATGATTGTTGAGTATGAGCGTAATGGCAGCATCTACGACCAAGGGTT
TGATTTCCAGGGTGAGAATGTTGAGCCCGAGCACCCACCTCCTGCAACCTTTGAACAGTTTGTCCAATTTCATCGTGAGA
TGCGTGATCGGAACACTCATACGCAGCTGCAAGATGACTTGGTTGAGCACATGTGGAATCACATTGGCAATCAGTAGATC
TATCGGTTTAATCTCTTTTCATGTGCACAAACTTTGAATAGTTTTGTAAGACTATTTGATACTTTTAAAATTTTAATTAG
ATTGTAATAAAAGACTCTTTTGAACATGTTTTTGTGTTTGATCTAAACTATTTTATTGTGCTTAATTTTATTGTACTTGA
CCTTGGGGCGGATAAGATGGAACATAAGTCCGGGCGGATACGGTTTTATTATCGC-TTTAAAACGGACAAAATCCGGATA
AAACGGGCATCCGTTTGGGATCGTTCGTTGGTGTTGGGCTTATT-------CCGGAATATGTGGATCGCAAGTTTTGTTA
CGTCGCTTTTTCCTGGCCAAAAGTAGGTTGGGCTACCAGCAAACGGCAGCGCCTAAATTTCCCTGGAATAAACGGTCTGT
CCTCTTCCCCGTTCATCGATCCCAACTCCCAAGCATATAAAAGCGAGGCCGGCTATTGTTGTCTCTTGTCGGAGCTCCAT
TTCTTGGATTTTCCTTGCCGGCCTCTCGCCGCCGAGTTCCGACCAATCCCATATGTGCCCATTTAGCTCTTCACAGCAGG
TAGGATGGGAGTATCATGTTTGGAGATTTGTTCTCTCAATTTCGATTTCATTTCTTCTGTTCTCGCTTCCAAATGACAAG
ATTTGATTTGTTTTCTCTTGTACGTGTAGATCTGCGGCGTCGTGACGCCGCCTTCTCCATCGTTGATCCAGAACGGACTC
GACGAACCGATTAATCATCCCGAGTCACGATCACGACCTCGCGTGACGCAGCCATGGCGGTCATGGACCACGACAACGGT
TCTGCGCGCGCACCGGCACCGGCGCCGAGGAGTCAGCCCTCGTACTCCTGCAGCGGCGGCAGCGTCGAGACCACTCACGA
CCACAAGCTTTCCCACTCCGACTCCTTCTGGACGCCGGCCGAATCGCTGCGGTCGTCGTCCGCTTCGTCGTCGTCCTCAC
CTCTATCCAGCAGCTCGTCGTGCGAGAGCATTCCCGCACTCGACCTTGACCGGCACTCGTCCTTGTCCTCCACATCCTCC
TACGAGAGCTTGCACCACGTCGAGGCGGCGGCGGACCACGACTATTCTTCCTCTCCCGACGAGTTCATGCCGGCAACGCT
GCCGCCGGCAGTCCAGACGATGATGGCGCAGGGGCAGCCCGCTGGGTACGACCCGAAGAGGCTCCCTTCATCGATGTTCC
GCACGCAATCCACGTGCCCCGCCCAATGGAGCGCCACCTCGAACGACCAGCTGTTCAGCATCCAGCTGGAAAACTCCGGC
GGGGACGGCCCGCTTTACCTTGTCGGCGACCTCTACTACGACGACGCTGGGGTGTTCCACCGCGTCTCAACCGTCGCGAG
GCTGCCGGCCGTCCCAGAGATGTCGACAGGAAACTCCAGCCGGAGTTTGTGCGTGAGGGATGACTGCGCGGGGTGCAGAA
CAAGCATGAACAAGAAGTCCGTCAGGTTCGCCACCGCCGATGGCGTCGCCGGCCCGCGCAGGTACACGGTCGTCTTCCCG
ACGCTCAGTATCTCGCATGGTTTGCACTGCGTGCGCG--GTTTCTCTGTATCCAAT------------------------
-----------------------------------------------------------GAATACCTGCTAATTGTGTCC
CTCGTCGTCCTGACCTGCGAATGTTGGCTTCAATTGCAGTCTTCCGGCCGCGTTGGAGGAGACGGACGCATCGGCGGCGG
AAACTGGCGCGGCGGCGGAGGCTTGTTGGTGCTGTTGGCCGTCGATGTGGTGGCCAAGCTGCGCGTGCCGCGGATGCGAC
TGCCGATGGTCCTGAATTTGGAATGGGTAGGAAAGTTTGGACATGTCGAATCCATTGAACTCCATGTTGTCGATCGGCTG
TGGAA-GGGTGCACATAGATTGGTAGGCGTCTTGGCGTGTTCTTACGTT-------------------------------
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---------------------------------------CTAATAAAAGAATTTGCGAGTTGCGGCAAGGAAACAAAACA
CAAATGCTGCTGGCTAAAAGCAAATGGGTGAGGCTACACGTCAGTTGACTGACTTTTTTAAATCAGGTCAGTCGATTTTT
CAAACGCACGATCGAAATCCAACGGCGCCCGACCTTTCTTCTACCTCTATCTCTTCTTCTTCTCCA------------GC
CGCCGGCCGAACCGCCTGCGACCATCACCCGCGGCCGGCAGCGCT------CCCGCCCTCCCCGAAACCG-CCCCCACCG
CCGGTCTAGCCGCTGCCCCCGGCCATCCCTCTAGGCCCGCCCTCGTTTAAGTTTTTTCTCCGGCGAAGTGCACCACCGGC
CCCCACCACCGCCTCCACCACCGCCCCCCACCGACGGTTTAGCCGCTGCCCCGA-CCATCTCTCTAGGCCCGCCCTCGTT
TAAGTTTTTTCTCCGACGAAGTGCACCACCGCCCCACCACCACCGCCGTCCACCACCGCCCCCACCTTGAACCCTAAGTT
AGATACTGGGGTAGTCCTCCCGCGAGCCCCTTCCTTCTCCTTCCTTACCTCCGGCTCACTCCGGCCATCTCTTGAAAACC
GACTGACCCTATTTCAAAATCAGTCGATTG
>chr1A_487
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-------------------CTTATTCGGGACAAACCCGTTCGTCA-TATGGCCGGAATATGTCGATCGCAAGTTTTGTTA
CGTCGCTTTTTCCTTGCCAAAAGTAGGATGGGCTACCAGCAAACGCCAGCGCCTAAATTTCCCTGCAATAAACGGTCTGT
CCGCTTCCCCGTTCATCGATCCCAACTCCCAAGCATATAAAAGCGAGGCCGGCTATTGTTGTCTCTTGTCGGAGCTCCAT
TTCTTGGATTTTCCTTGCCGGCCTCTCGCCGCCGAGTTCCGACCAATCCCATATGTGCCCATTTAGCTCTTCACGGCAGG
TAGGATG--------------GGAGATTTGTTCTCTCAATTTTGATTTGATTTCTTCTGTTCTCGCTTCCAAATGACAAG
ATTTGATTTGTTTTATCTCGTACGTGTAGATCTGCGGCGTCGTGACGCCGCCTTCTCCATCGTTGATCCAGAACGGACTC
GACGAACCGATTAATCATCACGAGTCACGATCACGACCTCGCGTAACGCAGCCATGGCGGTCATGGACGAGGACAACGGT
TCTGCGCGCGCACCGGCACCGGCACCGAGGAGGCAGCCCTCATACTCCTGCAGCGG---------CGAGACCACTCACGA
CCACAAGCTTTCCCACTCCGACTCCTTCTGGACGCCGGCCGAATCGCTGCGGTCGTCGTCCGCTTCGTCGTCGTCCCCAC
CTCTATCCAGCAGCTCGTCGTGCGAGAGCATTCCCGCACTCGACATTGACCGGCACTCATCCTTGTCCTCCACATCCTCC
TACGAGAGCTTGCACCACGTCGAGGCGGCGGCGGACCACGACCATTCTTCCTCTCCCGACGAGTTCATGCCGGCAACGCT
GCCGCCGGCAGTCCAGACGATGATGGCGCAGGGGCAGCCCACTGGATACGACCCGAAGAGGCTCCCTTCATCGATGTTCC
GCACGCAGTCCACGTGCCCCGCCCAATGGAGCGCCACCTCGAACGACCAGCTGTTCAGCATCCAGCTGGAAAACTCCGGC
GGGGACGGCCCGCTTTACCTTGTTGGCGACCTCTACTACGACTCCGCTGGGGTGTTCCACCGCCTCTCATCCGTCGCGAG
GCTGCCGGCCGTCCCAGGGATGTCGACAGGAAACTCCAGCCGGAGTTTGTGCGTGAGGGATGACTGCGCGGGGTGCAGCA
CAAGCATGAACAAGAAGCCCGTCAGGTTCGCTACCACCGATGGCGTCGCCGGCCCGCGCAGGTACACACCCGTCTTCCCG
GCATGCATCATCTCGCATGGTTTGCATTACGTGCGCGCGGTTTTTCTGTATCACATTAGTACTCCCTCTATAAACTAATA
TAAAAGCATTTAGATCATTACTTTAGTATTCTAAACGTTCTTATATTAGTTTACAGAGGGAGTACCTGCTAATTATGTCC
CTCGTCATCCTCACCTGAGAATGTTGGCTTCAATTGCAGTCTTCCGGCCGCGTTGGAGGATTCGGAGGCATCGGCGGCGG
AAACTGGCGCGGCGGCGAAGGCTGGTTGGTGCTGTTGGCCGTCGATGTGGTGGCCAAGCTGCGCGTGCCGCGGATGCGAC
TACCGATGATCCTGAATTTGGAATGGGTAGGAAAGTTTGGACATGTCGAATCCATTTAACTCCATGTTGTTGATCGGCTG
TGGAGGGGGTGCACATAGATTGGTAGGCATCTTGGCGTGTTCTTACGTT-------------------------------
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---------------------------------------CTAATAAAAGAATTTGCGAGTTGCGGCGAGGAAACAAAACA
CAAATGCTGC---CTAAAAGCAAAT-------------------------------------------------------
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>SNPs
S---------------S-----------S---------SS--S--S----------------------------------
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--------------------------------------------S-----------------------------------
------------S-----S------------------S-----------------------S------------------
----------------S----------------S--------------------S----------------S--------
-------------------S--------------S-S-S-------S---SS---S--S------S--S---------S-
-----S--S-------SS------------------S--------S----------------------------------
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--------------S-----------------------------------------------------------------
--------------------------------S---------------------------S-------------------
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--------S-----------------------------------------------------------------------
----S---------------------------------------------------------------------------
---------------------------------------------------S----------------------------
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-----S---------------------------------------S----------------------------------
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-------------------------------S------------------------------------------------
----------------------------------S--------------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS-----------------------------------------
------------------S---------S-------SSS-----------------------------------------
------S------------S------S----S---------------S----------------S-SSSSSSSSSSSS--
--------S----S-S--------S--------S---SSSSSS--SSSSSS---S---------------S---------
---------S-----------S---------------S-----------------S------S---------------S-
--------------------------S-----------S---------S---SSS--------------S----------
------------S--S-------------------------S-----------------S------S-------------
--------------S-----S--------S---------------------S----------S---------S-------
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>forward_781
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-----------------------------------------ACCAATCCCATATGTGCCCG-------------------
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>reverse_2254
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-------------AACGTTATAGCACGCCACCA-----------------------------------------------
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