>input_sequence_78271
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------------------------------------------------------------ATGAACGGCTACCGCAACCT
CGCCTCGTCCCCTCCGGCGCCCAGCGGCGGGGAGCCGGAGC------CAGCCCGGCCCCCGGCGACGGCGAAGGAGGGCA
AGTGGGAGGGGGCGGCGGTCGGCGCGGCGGCCATGGTCAGGAACCTCTCGTCCGCCTCCCAGAGGTTCGCGGCCGTGGAG
CGGAGCAAGTCCACCGGCGGCCACC---GCGGCGGCGGCTTCCAGGCGGTCGTGAGGCGGGCCTTCTCCATGCGGAGGCA
GCCGGCGTCCAGCCTCTCGGAGGGGTACTGGCGGATCCACGACGGCCTGGAAGACGGCGACGACGACGCCGAGGCGCCCG
AGGAGGTCGACGAGCAGAAGAAGCATCAGGTGGCGGAGGCCGTAGAGCCGGAGGTGCAGGGAGACGCCGCGGCGAGCAGC
GACGAGATCGGCAAGGAGAG---------GAAGAAGAAGAAGCGGGGTCACATCTTCAAGGCGTGCAAGAAGCTTCTTGG
CTTCAAACATGTTTAG----------------------------------------------------------------
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>chr3B_1_TraesCS3B01G420300
GTCACCCCCGAAGCTCCTTATCAGCCAGTGCCTGAGCTCTGAGATCACATCGATCGCCTTGAAGCTCCATGTTCATCATC
ACCTCCCTCGAGTTCCCGGGTACCAAAATGTTGCAAAGCCCGTTGTTGACTCCGTTCAAGCGACTATTTCGGCCAAAATT
GGTAC-TTTTATGGTACCGAACGG---GATACCAAGTCACTGGACATGGCGAGTACGCGGCGGTTGTCATTGAGTCTCGA
ATTAGAGCAATGCTAGACCTACGAAGATATTCTACGTAAGCTAACGGGCAGGCATAGGTGGAGGATTACTATTGGACCTA
AGGGGGGGATGGGGCCCACCCCCCTGAAAATCAGGGGGCAGAGATAATTAGCGAGAAGGATTTACGTATAACCTTCGTAA
CTTCACGTAGGTGTAGAATTATTGCTCGAATTATGCAGAACATTTTGCTGTGTCCGTTGGAGAAAGTATTTTGCCGCAGT
CAGTATTTTCTAATGCAGAGTAGGATAGTGAGTCGGTTGAACTT---------------GCACCAGGGAGAGAGTGCACG
CTCGTTCA-------AGCGCCTGAATTCATGCCAGATAAGAGGGTGACAGTTT------GGTTGGTAACACGTCATGTCA
AGGCGACAAAGAATCCATATGCACTGGATTGTAGCGTAGCAATTCCCGTGGATGCGAATTGGCGTCA-------------
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-----------------------------CGAAACCCCGTGGCCGGAGCCCTGACGTGGTGGTCAAATTGGACGCTCCCG
CGGGGCCCCAA--------------TCGCCCCAAACCCAACCCAACACAACACCGCGACAACACAAGGCCGGAGCGGCTG
ATCTCACACTCACAGCACTACTTCCTCCGTTCTCATTCTCCACTGCCGCAGTGCCGCTGCTGACGAGTGACGAGCACCGC
GCACGCGCCGCATCCACTCCACCTCGCACGCGAGTACAAATCCCAGACCTGAGAACCTCCTCGCCACCAGCCCCACGCCC
GCAGATCAGTACACTCGTAGC------------AGCAGCGGCGGTAACTGAAGCGGGAGGATGAACGGCTACCGCAACCT
CGCCTCGTCCCCTCCGGCGCCCAGCGGCGGGGAGCCGGAGC------CAGCCCGGCCCCCGGCGACGGCGAAGGAGGGCA
AGTGGGAGGGGGCGGCGGTCGGCGCGGCGGCCATGGTCAGGAACCTCTCGTCCGCCTCCCAGAGGTTCGCGGCCGTGGAG
CGGAGCAAGTCCACCGGCGGCCACC---GCGGCGGCGGCTTCCAGGCGGTCGTGAGGCGGGCCTTCTCCATGCGGAGGCA
GCCGGCGTCCAGCCTCTCGGAGGGGTACTGGCGGATCCACGACGGCCTGGAAGACGGCGACGACGACGCCGAGGCGCCCG
AGGAGGTCGACGAGCAGAAGAAGCATCAGGTGGCGGAGGCCGTAGAGCCGGAGGTGCAGGGAGACGCCGCGGCGAGCAGC
GACGAGATCGGCAAGGAGAG---------GAAGAAGAAGAAGCGGGGTCACATCTTCAAGGCGTGCAAGAAGCTTCTTGG
CTTCAAACATGTTTAGTCTAGTCAACAA-----GAAGCTTCTTGGATTCAAGATCCATGGACGCTCTTGATGTGCTTCTG
TTTTGGATCTTGTTCTTGTCTCGTTCGTCGT---TTTGAGTAAATAAAGAGCTTTGGTTTCGTTGACTTGAACATGGGAC
TACGTTGCTGTATTTCTGCGTCACGTGAG----CTCGGCCATTGAATGTGGTCCTGACAATGGGACTTTGGGGGCATGTA
CGCGGTCCT-------------------GCAGTCAAAGGGAAGGGCACCTTGTCCGGCCGCAAAGCCGTGCGCCAGATAT
TTGTGGCCATGGATCCGCTGCGCACTTTGTGAGGTCTTGGTCC--CTAGATGAAATTTGACTCGCAGCTCAAAAGGTTAG
GTTTCTTCAAGCAAGCAGAAGTTTTGATGTGAAAGCATCTACAGCCGGACTTAACAAATCCGGCTCCTCAAACACCCGTG
ACACAGATTGGACGTGTCCACGAGCATCGACGGATCACACCTTGTATTTGATGCTAAGCAT-CGAGTACCTCATATTTCA
TCCCCTAAATC-ATACAAACCATGCAAAAGAATTCTTACATATGTACTCTGTACACCATGCTAGCCTAAACTAAGCTTCC
TCGTCGAAGATGTCCACAACGTCCGTACCGGGTGCCGGGTAGTTGGGCGCGTCGAAGGGATCCGACTCCTCTTCATCCAT
ATAAGCAAGCATCTCGTCGACGCCCGCAGCGTGTTCCGCCTCTGCATCTTGTAGACAATGGTGTTTGGCCTTCGCCGTTG
ATTCCGACCGGAGAGAATCGAGGATTGCCTGTTGCTCCGCGTGCAAATCCGTAGCCCCAACGTCCCCACGTCCTCCTTGT
GCTCCTCCTCCTCCTCT---AGCTCCTCCTCTCCCACCACCTTCTCCTCCACCTCCAAGTCCTCCTCCGGAGCCACCACA
TCCGAAGGTAGCCCCGCGGCGATCCGGGTTTCGCGCCTTGCCCGGATATGCTCAAGGAGCTGCAGCCTGCGGTCTGGCGT
TAGGTATGGGTACA
>chr3D_2
-TCACCCCCGAAGCTCCTTATCTGCCAATGCCCGAGCTCTGAGGTCACATTGATCGCCTTGAAGCTCCATGTTCATCATT
GCCTCCCTTGAGTTCTCGGGTACCAAAATGTTGCAGAGCCCGTTGTTGAGTCCGTTCGAGCGACTATTTCGACCAAATTC
GATACTTTTTATAGTGCCGAACGGGTTGATACCAAGTCATTGGACATGGCGAGTACGCAGCGGTTATCGCTGAGT-----
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------------------------CTCGAATTATGAAGAACGTGTTGCTGTGTCCGTTGGAGAAAGTGTTTTTCCACAAT
TGGTATTTTGATATGCAGAGCAGGATAGTGAATCGGTTGAGCTTAATCTTTTGCCACGAGCACCAGGAAGCGAGTGCATG
CTCGTTCACTGTTGGAGCGCCTGAATTCATGCCAGATAAGAGGGTGATGGTTT------GGTTGGTGACACGTCATGTCA
AGGCGACAAAGAATCCATATGCACTAGATTGTAGCGCAGCAATTCCCCTGGATACGAATTGGCGTCA-------------
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-----------------------------CGAAACCCCGTGGCCGGAGCCC--ACGCGGCGGTCAAATTGGACGCTCCCG
CGGGGCCCCAACCCACCGAAACGGCTCGCCCCAAACCCAACCCAACACAGCACCGCGACAA-----GGCCGGCGGGGCTG
ATCTCACACTCACAGCACTACGCCCTCCGTTCTCATTCTCCACTGCCGCGGTGCTGCTGCTGACGAGTGACGAGCACCGC
GCACGCGCCGCATCCACTCCACCGCGCACGCGAGTACAAATCCCGGACCTGAGAACCTCCTCGCCACAAGCCCCACGCCC
GCAGATCAGTACACTCGTAGCGGCAGCGGCAGCAGCAGCAGCGGAAACTGAAGCGGGAGGATGAACGGGTACCGCAACCT
CGCCTCGTCCCCTCCGGCGCCCAGCGGCGGCGG---GGAGCCGCAGCCAGCCCCGTCCCCGGCCGCGGCGAAGGAGGGCA
AGTGGGAGGGGGCGGCGGTCGGCGCGGCGGCCATCGTCAGGAACCTCTCGTCCTCCTCCCAGAGGTTCGCGTCCGTGGAG
CGGAGCAAGTCCACCGGCGCCCACC---GCGGCGGCGGCTTCCAGGCGGCCGTGAGGAGGGCCTTCTCCATGCGGAGGCA
GCCGGCGTCCGGCCTCTCGGAGGGGTACTGGCGGATCCACGACGGCCTGGACGACGGCGACGACGACGCCGAGGCGCCCG
AGGAGGTCGACGGGCAGAAGAAGCATCAGGTGGCGGAGGCCGC---------GGTGCCGGGAGACGCCGCGGCGAGCAAC
GACGAGATCGGCAAGGAGAC---------GAAGAAGAAGAAGAGGGGTCACATCTTCAAGGCGTGCAAGAAGCTTCTTGG
GTTCAAACATGTCTAGTCTAGTCAACAA-----GAAGCTTCTTGGATTCAAGATCCATGGACGTTCTTGATGTGCCTCTG
TTTTGGATCTTGTTCTTGTCTCGTTCGTCGT---TTTGAGTAAATAAAGAGCTT-GGGTTCGTTGACTTGAACATGGGAC
TGCGTTGCTGTATTTCTGCGTCACGTGAG----CTCGGCCATTAAATGTGGTCCTGACATTGGGACTTTGGGGGCATGTA
CGCGGTCCT-------------------GCAGTCAAAGGGAAGGGCACCTTGTCCGGCCGCAAAGCCGTGCGCCGGATAT
TTGTGGCCATGGATCCGCTGCGCACTTCGTGAGGTCTTCGTCCTA---GATGAAATTAGACTCGCAGCTCAAAAGGTTTG
TT---------CAAGCAGTAGTTTTGATGTGAGAGCATCTACTGTCAGACTTGACAAATCCGGCTCCTTAAATGCCCGTA
AAATAGATTGGACGTGTCCAT-----------------------------ATGCTAAGCAT-CGTGTACCTCATATTTCA
TCCCTTAAATC-ATGTAAACCATGCAAAAGAATTCTTACGTACGTACTCTGTACACCATGCTAGCATAAACTAAGCTTCC
TCGTCGAAGATGTCCACAACGTCCGTACCGGGTGCCGGGTAGTTGGGCGCGTCGTAGGGATCCGACTCCTCTTCATCCAT
ATAAGCGAGCATCTCGTCGACGCCCTCAGCGTGCTCCGCCTCCGCATCCCGCAGACAATGGCTTTTGGCCTCCGCCGCTG
ATTCCGACCGGAGAGAATCGAGGATTGCCTGCTGCTCCGCCTGCAAATCCTCGGCCCCAACGTTCCCACGTCCTCCTTGT
GCTCCTCTTCCTCCTCCTCCAGCTCCTCCTCTCCCACCACCTCCTCCTCCACCTCCAAGTCCTCCTCTGGATCCACCACA
TCCGAAGGTAGCCCCGCAGCGATCCGGGTTTCGCGCCTTGCCCGGATATGCTCAAGCAGCTGCAGCCGGCGGCCAGGCGT
TAGGTATGGGTACA
>chr3A_527
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-----------------------------------------------------------------GGGAGCGAGTGCACG
CTCGTTCACTGTTAGAGCGCCTGAATTCATGCCAGATAAGAGGGTGATATAGTAGTTTGGGTTGGTGACACGTCATGTCA
AGGCGACAAAGAATCCATATGCACTGGATTGTAGCGCAGCAATTCCCGTGGATACGAACTGGCGTCACGATGGCCCTGTT
TGGATACTCTAACACAGTTAGAGTTAGAGTTATTTTCTAACCCACTCTAACCCAAGTAAGCACCTCTCCATCGGGATAGT
TGGGTTAGATAGAACTAACCCACTCTAACCCTTTCTGTTTGGATACTTTTGGGTTATTTGAGCCTCCAACTAACCCAAAC
TAGCTCTAACCCCATGATCCAAACAGGGCCGATACCGCGTGGCCGGAGCCCTGACGTGGCGGTCAAATTGGACGCTCCCG
CGGGGCCCCAA-----------------------ACCCAACCCAACACACCACTGCGACAA-----GGCCGGCGCGGCTG
ATCTCACACTCACAGCACTACGCCCTCCGCTCTCATTCTCCACTGCCGC--------TGCTGACGAGTGACGAGCACCGC
GCACGCGCCGCATCCACTCCACCGCGCGCGCGAGTACAAATCCCGGACCCGAGAACCTCCTCGCCACCAGCCCCACGCCC
GCAGATCAGTACACTACACTGGT----------AGCGGCAGCGGTAACTGAAGCGGGAGGATGAACGGCTACCGCAACCT
GGCCTCGTCCCCTCCGGCGCCCAGCGGCGGGGAGCCGGAGCCGGAGCCGGCCCCGCCCCCGGCCGCGGCGAAGGAGGGCA
AGTGGGAGGGCGCGGCGGTCGGCGCGGCGGCCATGGCCAGGAACCTCTCGTCCGCCTCCCAGAGGTTCGCGGCCGTGGAG
CGGAGCAAGTCCACCGGCGGCCACCGCGGCGGCGGCGGCTTCCAGGCGGCCGTGAGGCGGGCCTTCTCCATGCGGAGGCA
GCCGGCGTCCGGCCTCTCGGAGGGGTACTGGCGGATCCACGACGGCCTGGACGACGCCGAGGACGAGGCAGAGGCGCCCG
AGGAGGTCGACGCGCAGAAGAAGACTCAGGTGGCGGAGGCCGC---------GGTGCCGGGAGACGCCGCGGCGAGCAAC
GACGAGATCGGCCAGGAGGAGACGAAGAAGAAGAAGAAGAAGAGGGGCCACATCTTCAAGGCGTGCAAGAAGCTTCTTGG
GTTCAAACATGTCTAGTCTAGTCTAGTCAACAGGAAGCTTCTTGGATTCAAGATCCATGGACGCTCTTGATGCGCCTCCG
TTTTGGATCTTGTTCTTGTCTCGTTCGTCGTCGTTTGGAGTAAATAAAGAGCTT-GGGTTCGTTGACTTGAACATGGGAT
TGCCGTGCTGTATTTCTGCGTCACGTGAGTGAGCTCGGCCATTGAATGTGGCCCTGACAATGGGACTTTGGGGGCATGTA
CGCGGTTCGGCGGATGATGCGTGGCAACGCAGTCAAAGGGGCGGGCACCTTGTCCGGCCGCAAAGCCGTGCGCCAGATAT
TTGTGGCCATGGATCGGGTGCGCACTTTGTGAGGTCTTCGTCCTACTAAATGAAATT-----------------------
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>chr4B_1977
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-----------------------------------------------TTGGTGCTATGCATCCGTGTACTTCATATTGTA
TCCCCTAGATCTATACAAATTATGCAAAAAGAAAT---CCTATGTACTAAGCACATCACCCTAGCCTAATCAATGCTTCA
TCGTCGGAGATGTCCATGATGTTCGTGCTGGGCGTCGGGTAGATGGGCGTGTAGCAAGGCTCTGG---CTCCTCATCCAT
ATACGCAAGAATCTCCTCGACGTCCATAGCATGCTCCACCTTTGCCACCTGTAGGCAACGGCGGTTGGCCTCCGCCTCCA
ATTCCGACCGGAGCGAATCGAGTATCGTCTACCGCTCGAGCTGCAAATCCGCACCCCC--------CACTTCATCCTCGT
CCTACTCCGTGCCCTCCTCCCTCTCCCCCCTCAT-----CCTCCTCCTCCCCCTCCAAGTCCTTCTCCGGATCCACCACA
CCTGAAAGTAACCCCGGGT-GATCCTGACTTCGCGCCTTGCCCGGATATGCTCAAGGATCTGTAGCCGGCACTCCGACAT
TAGATATGGGTA--
>SNPs
S---------------------S----S----S----------S------S----------------------------S
S-------S------S-------------------S-------------S-------S-------------S-----S-S
-S----------S--S-----------------------S------------------S------S--SS-----SSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSS-----------S-----S-S-----------------------S----S--S--S-
SS-------SSS--------S----------S--------S-----------------------------S---------
-----------------------------------------------S------------------S-------------
------------------------------------S----------------S--------------------------
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-----------------------------------------------------------S--------------------
-------------------------------------------------S-----------SSSSS------S-------
---------------------SS--------------------------S----S-------------------------
-----------------------S--------------------S-----------------------------------
---------------------------------------S----------------------------------------
-----------------------------------------------------S---------SS---------------
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-------------------------------------------------S------------------------------
----------S----------------------------------------S----------------------------
------------S-----------------------------SSSSSSSSSS-----S--------------------S-
-------------------S----------------------S-------------------------------------
S-----------S--------------------------------------------------------------S----
------------------------------------------------------S--S----------------------
-S------------------------------------------------------------------------------
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--------------------------------------S------------------S--------------------S-
S-SSSSSSSSS-------S-------------S---------S-S-S-----S---------------S---SS-----S
-S-S----------------SSSSSSSSSSSSSSSSSSSSSSSSSSS-----------------S---------------
---------------------------------------S----------------------------------------
------------------------------------------------------S-------------------------
-------------------------S-------S--------------S------------S---------S-----S--
-------------------------------S--------S----------S-----------S----------------
----------------S-------------------------S----------------------------S--------
-------------------------------------------------------------------S------S-----
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>forward_297
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-------------------------------------AAGCTAACGGGCAGGCATAG-----------------------
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>reverse_2233
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------------------------------------------------------------------------CACCCGTG
ACACAGATTGGA--------------------------------------------------------------------
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