>input_sequence_84688
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-------------------------------------------------------ATGTCGTCGACGACGCAGAGCGCGG
CCCTGTCGGCGAAATGCGCGGCGTGGGCGCAGGAGCGGCGGCCGTTCACGCACCCGATCGAGATCCCGGCGGCCTCCGGC
GCGCCGGACGAGCGGAGGGGCCGCGGCGAGGAGGAGGAAGGCGGGGAGGTGGAGCCGCCGCACGTGCTGATGGCGCGGCG
CAGGGCGGCCTCCTCGGTGTGCTCCGGCCAGGGCCGGACGCTCAAGGGCCGGGACCTCACGCGCACGCGCGACTCCGTCC
TCCGCATGACCGGCTTCATCGAGAGCTAG---------------------------------------------------
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>chr3D_1_TraesCS3D01G283600
ACGGTGATGC----------------------------------------------------------------------
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-----------------------------------------GAAAAATCATTTGACGAGCCGTTCACAAGTTCATCGAAC
CTAGCCCTCTGGACGTCTACTTCCTCACCGTTTCCCGCTGCATGTGAGCATCGTCCT---AACTGATGCTACCGTACCAA
A---------------GTATAGCAGTGAGTGAAGATCAATTTTCCGATAAAGCGGTCCTTTTGATGTTGGCTATGCTATA
CGCATCGCTCAGAGC---GAGCGATCGAATACCATGCATGAAGCATGTGCCACTGCCAAGTGAAGCAGAGTTTCTGCCGG
CGCGTCCACCCACAGAATCTGGCCGAGAGCAGCATGGCATCCTCGGCGCGTGCCACGCGTGCAAATCGTTCCCCGGACGT
CAGTGTTATCCACAAACGTGCACGTGCACGCTGCACGCAGACACACAGACCAAGAACACGTGGGGTATGCCACAGAGGCA
ACACAACCAATCAAGAAACGTGCACGTGCA--------------CGCTGCGACAAAACGCATGATCGCCGCAAATCACGT
CCAGGTTCATTCAAGCAAGCGCCAAAACGAGCGATC----AGATCAAAATCAAAATCAGG----AGGTGGAGTGGTCGAG
CCTGAAAGGCAAAGCCAACCGGCCACACCGA--TCCTACTAATTGAGCAACGCGATTACGTGAACGTACGGGGGAATATG
AAGTGCCTTAATTTTGTTGCGTAGCAAGCC-----CAGCCGCCCAAGCCAGGCAGGCACTGGGGCTGGATCGCGGACGGG
ATTATGGAATTATTCCTTCCC-TTCCCGTCAAAGCTCAAAACCGCATACTTATCTGTCACACAAT--------GGTGCAG
CTCCACACGGAACGTGCCTAGCTTAGCTTCGCCTACCTAGGTAGCTGCCTGCCGGGCCCTATAAATCCCTCGCGCCGCGG
CGAGCTGCGGAGGGAATATCTCGGCGAGCTGTCTGCCTGTCCGTCGTGTTTCGCAAGCTCTCGTCA-TTGGTTGCCTCAT
TCACAGCTAGCTAGCCC----CGAGTTCGTCCTTTGCACAGCCGGCCGGCCGGTCATGTCGTCGACGACGCAGAGCGCGG
CCCTGTCGGCGAAATGCGCGGCGTGGGCGCAGGAGCGGCGGCCGTTCACGCACCCGATCGAGATCCCGGCGGCCTCCGGC
GCGCCGGACGAGCGGAGGGGCCGCGGCGAGGAGGAGGAAGGCGGGGAGGTGGAGCCGCCGCACGTGCTGATGGCGCGGCG
CAGGGCGGCCTCCTCGGTGTGCTCCGGCCAGGGCCGGACGCTCAAGGGCCGGGACCTCACGCGCACGCGCGACTCCGTCC
TCCGCATGACCGGCTTCATCGAGAGCTAGCCCGTCCTTGCCGCG------------CGCCCATCTTGTTCGCGGCCGACG
GCGCGCGGCCGGGCTGCCCTGCGCGGCTTGCCGGCTGCAGTGATACATGCTGTCTGCTTGGGTCGTTGATCCAGTTT---
GTAGAGTAAATAAGATAGCTACGGAGCATAGGACGA-ATGTCGATGAATTTTCTTCAATCGGTCTCATTTGTGAATTGGT
TGGAATTGGAAGAGCGAGATGAAATTTAATCCGTTGGTGTAAA-CTTACTCTGTGTGTACGTGTGTGTGT--GTCATATA
AATATAA--------------------------------------------------TACATCTGGTCAAAATGCAAATG
CAATGTGGTTTCTTGATACTACGCTCCATCTACACATCGCTGACTCGCTGCTGATTCAGTAACTGCGACGCGCGCGCACC
CTGCACCGGCATCTCTGTGGAC-------TCATTCAAGCAACTACTTGATCAGGTGGT--------TACATGGGTAACTT
CTGGAAATCCCCATGAAAGATAA-----------------GACAAAAATGGCTGGATGGGTAGTTGGGTAATCAGCTTAG
AGAGTCCTACATATATACCCCATCCA--------CCATGTAATACTACTCTACTACTACTTAATTCGTACTTATACCCTA
TCCTAAGTAC-----ACCAAGCTAGCTAGGGGG-TCAAGTCAAGCCCAGCAAAAGACGATGCTACGGGAAGATCAAGAT-
--GAAGAATTCCATGAAGCAGACATACTGTGGCCAGA------TGCAGCCCAGGATCCCGTGGTAGCTCAGGTGCACTAC
TCTCAGGACGACGGCGATGAAGACGACGACGAGTACTCCGGCGAGGACCG---------CCGTCCGACCAAGGCGCCCAA
CCGGCAGAAAGCTTCTTCCCCCATCGACATCCCCGGAAAGACCGGTAGGGCTACTGGTGCAAAAGCGCCGGCTCAGCAGG
CCGGGTTCAGCAAGTTCGGCGCGAGCCTTGCGGGCGCCGGCGGCGCCAGCGTGATGATCGGCAGCCAAGTCTTCGTGCCG
CCGCACGTCATCGTCGATCGGAGGGCCAAGAGGGACACGGCG
>chr3A_1
ACGCT---------------------------------------------------------------------------
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------------------------------------GATGCGAAATATCATTTGACGAGCCGTTCACAAGTTCATCGAAC
CTAGCCCTCTGGACGTCCACTTCCTAACCGTTTTCCGTTGCATGTGAGCATCGTCCTCCTAACTGATGCCACCGTACCAA
A---------------GCATGGCAGTGAGTGAAGATCAATCGTCCGATAAAGCGGCCCTTTTGATGTTGGCTATGCTAGA
CACATCGCTCAGAGCTCTGAGCGATCGAACACCATGCATGCCGCATGTGCCACTGCCAAGTGAAGCAGAGTTTCTGCCGG
CGCGTCCACCCACAGATCCTGGG------------------------GCGTGCCACGCGTGCAAATCCTTCCCCGGACGT
CAGTGTTATCCACAAAGGTGCACCTGCACGCCGCACGCAGACACACAGATCAACAACACGTGGGGTATGCCAGACGAGCA
ACACAGCCAATCAAGAAACGGTCCGGCCGGTTGGCTTTCCTTGGCGCTGCGACAAAACGCACGATCGCCGCAAATCGCGT
CCGGGTTCATTCAT-CAAGCACCAAAACGATCGATC----AGATCAAAATCAAAATCAGGAGCTAGGTGGAGTGGTCGAG
CCTGAAAGGCAAAGCCAACCGGCCACATCGATCTCCTACTAATTGAGCAACGCGATTACGTGAACGTACGGGGGAATATC
AAGTGCCTTAATTTTGTTGCGTAGCAAGCCAAGCCCAGCCGCCCAAGCCAGGCAGCCACCGGAGCTGGATCGCGGACGGG
ATTACGGAATTATTCCTTTCCCTTCCCGTCAAAGCTCAAAACCGCATACTTATCTGTCACACAGGGGCAAGGCGGTGCAG
CTCCACACGGAACGTGCCTAGCTTAGCTTCGCCTACCTAGGCCGCTGCCTGCCGGGCCCTATAAATCCCTCGCGCCGCGG
CGAGCTGCGGAGGGGATATCTCGGCGAGCTGTCTGTCCGTCCGTCGTGTTGCACAAGCTCTCGTCA-TTGCTCGCCTCAT
TCACAGCTAGCTACTTAGCTACGAGCTCGTGCT-------GCCGGCCGGCCGGTCATGTCGTCGACGACGCAGAGCGCGG
CCGTGTCGGCGAAATGCGCGGCGTGGGCGCAGGAGCGGCGGCCGTTCACGCACCCGATCGAGATCCCGGCGGCCTCGGGC
GCGCCGGACGAGCGGAGGGGCCGCGGCGAGGAGGAGGACGGCGGGGAGGTGGAGCCGCCGCACGTGCTCATGGCGCGGCG
CAGGGCGGCCTCCTCGGTGTGCTCCGGCCAGGGGCGGACGCTCAAGGGCCGGGACCTCACGCGCACGCGCGACTCCGTCC
TCCGCATGACCGGCTTCATCGAGAGCTAGCCCCTCCTTGCCGCGCGCGCGCGCGCCCGCCTGTCTCGCTCGTGGCCAGCG
GCGCGCGGCCGGGCTCAAGG-------------------------------GTCTTCTTGGGTTGATCCAGTTTG-TGTA
GTAGAGTAAATAAGATAGCTACGGAGCCTAGGGCGG-ATGCCGCTGAATTTTCTTCAATCGGTCTCATTTGTGAATTGGT
TGGAATCGGAAGAGCGAGATGAAATTTAATCCGTTGGTGTAAAACTTATTCTGTTTGTACGCGCGCGCGT--GTGTGTGA
CATATACTACTCCATATGTAAAAAAAAACATATACTTCATATGTAAAAAATAATAAGTACATATGGTCAAAATGCAAATG
CAATGTGGTTT-------------TCCATCTACACATCGCTGACTCGCTGCTGATTCAGTAACTGCGACGCGCGCGCACA
CTGCACCGGCATCTATGTGGACACTGGACTCATTCAAACAACTACTGGATCAGCTGTGGGATTACATACATGGGTAACTT
CTGAAAATCCCCATGCAAGATAATACTAGTGCTAGCATAGGACAAAAATGGCTGGATGGGTAGTTGGGTAATCAGCTTAG
AGAGTCCTAGATATATACCCCATCCAGGCATCCACCATCTAATAATACTACTA------TTAATACGTACTTA--CCCTA
TCCAAATACACACCAACAAAGCTAGCTAGGGGA-TCAAGTCAAGC-----AAAGGACGATGCAACGGGAAGAGCAGGAGG
GGGAAGAATTCCATGAAGCAGACATACTGTGGCCAGAGCCAGATGCAGCCCAGGATCCGGG---------------CTAC
TCTGACGACGACGGCGACGAAGGCCATGACGAGCACTCCGGCGAGTACCGCCGCTTCGCCCGTCCGGCCAAGGCGCCAAA
CCGGCGGAAAGCGTCTTCCCCTATCGACATCCCCGGGAAGACCGGTAAGGCTACTGGTGCAAAGGCGCCGGCTCATCAGG
CCGGGTTGAGCAAGTTCGGCGCGAGCTTTGCGGGCGCCGGCGCCGGCAGCCTGGTGATCGGCAGCCATGTCTTCGTGCCG
CCGCACGTCAGCGTCGACCGGAGGGCCAAGAGGGACACGGCG
>chr3B_6
GATGCGAAAAATCATTTGACAAGCCGTTCTCAAGTTCATCGAACCTAGCCCTCTGGACGTCTACTTCCTCACCGTTTCCC
GTTGCATGTGGGCATCATCCTAGCTGATGCTACCGTACCAAAGTTAAGCTAGATTTTTATTTGGTCAAGTAGTCTAATCA
CCCCCCCCTCTAGACATACTTTCGATCCTACAACAAGTCAGAGAGGCGGTAGTGCCGCCGGAGCGGTACTACTGCTCTCA
CCAGCGGTACTATCGCGTAGTGTTGAGCGAGCAGGTGAAACAACGGTAGTAGAGACGGATAGTGCGGTAGTGCCGCACGG
AGTGGTACTACCGCTTGATACTGCCGCTCTACTTCCGCTCGAAGAACAGAGCAGTACAGGAGGCATAAAATAAGCAATAG
AGAAACAACGGCAGTTCCACCGGAGCGGTGCTTCCGATGCACTGTTAGAAGCCGAGTACATCTGCGGTAGTGGGGTGCTA
GTCAGAGCCACAGTACCTAGGGAGCGGTACTACGGCGTTGAACCACCGCCCAACTACCGCTCATTTACAGAGCACTAAAA
ATAAGCGGAAGTGCTAGTAGCACTGAACTGCGGTAGTACAGCTGGAGCGGTACTACCGCTTATATGCCTTAAGTAAGCCC
ATGCATAAGATAGGAAAAGCTCCAGTACCGGGAAGGAAAGTGGGTGCAAAAAGACTATGTACGTGCTGATTCCACCCAAG
CCTTTTTGAAGTGGACCCATTCTTAATAGTATGGTGATCCTACGACTCAAATCCATAAAAAATGAAACGCAAGAAAAACA
ACCGTCTTCTCTATATATCTCTGAGGGGCACAAATCATCTTGTGCCTATGATAGATTCTCTGAAATGCTCAATGCCACGA
TTAGTCCACAAAAGCATTGTCATCAATCACCAAAACCACCAAGGGAGAAATATGCCCTAACAACATGGCCCCGTTCTTGA
TTTAACGTAGGTGCATGGCCCTTGATCGACCCCTGAACAATGGATGTGGCCTCACAAACCCACAACATCTATCTCATCGT
CGGACGATTCTTCAGACGATGATTAACATATACTATTATTGTAAAGAAAACTCATCCAAGCTGTCGTTATGATCGTTCGG
AGTGATGAATCTGTACCTCACAACCAGGTTAGGCAAACGCCCGGACACCTAGTAGGCGTCAATGGCCACGAGCATGGACC
AGTCTCGACCGGTGAAGATCCCGTCCTTTCCGGTTCTAGGAGCAGGGTCGTCGAACTTCATGGCCTCCAGTGGTGGCGTG
CCGAGGGGCGGCGATGGCCCCTGAGTAGGGTGCAGGACGCGAGCTACACCTTCAACGACAAAGAGGTGGAAACAACGCCA
GTGGTGGGTGTCGGTGGTGGCTGGGCCTGGGTCGGGGCGCGGGGGTGGCGAAGCGGAAGGAGTGTGGGTGGCGGCGGCGA
GGGCGAAGAGGCCGGGAGGTCGAGCTCGGAGGGTGTTGGGGTGGGTGTTGGCCTATGTGCAACCGAGAGGCGAGCCATGA
AAGGATGGCGCATGCATCCGCAACGTGTCCACACGAACGCAAATCCGGCCAAAATTTAAGCCGGAAACGAATCAAAGTGG
ACATGAAAACGGACAATGGTCCGTTTACATCAACGCGTTAGGCCATAGTATTTTCTGCACGAACAAAAACAAACGGACAA
AATGGGCCAGCCCATTGGAGTTGCCAAAAACACGCCGATGCGAAAAATCATTTGACGAGCCGTTTTCAAGTTCATCGAAC
CTAGCCCTCTGGACGTCTACTTCCTCACCGTTTCCCGTTGCATGTGGGCATCGTCCT---AGCTGATGCTACCGTACCAA
AGTATAGCAGTATCCAGTATAGCAGTGAGTGAAGATCAATCTTCCGATAAAGTGGTCCTTTTGATGCTGGCTATGCTACA
TGCATCGCTCAGAGC---GACCGAATAAA---CATGCATGATGCATGTGCCACTGCCAAGTGAGGCAGAGTTTCTGCCGG
CGCGTCCACCCACAGATCCTGGCCTGCT----------------GGCGCGTGCCACGCGTGCAAATCCTTCCCCGGACGT
CAGTGTTATCCACAAACGTGCACGTGCACGCAGCACGCAGACACAGAGATCAAGAACACGTGGGGTATGCCAGACGAGCA
ACACAACCAATCAAGAAACGGTCTAGCCGGTTGGCTTTCTTGGCA-CTGCGACAAAACGCATGATCGCCGCAAATCACGT
CCGGATTCATCCAAGCAAGCACCAAAACGATCGATCGATGAGATCAAAATCAAAATCAGG----AGGTGGAGTGGTCGAG
CCTGAAAGGCAAAGCCAACCGGCCACACCGA--TCCTACTGATTGAGCAACGCGATTACGTGAACGTACGGGGGAATATG
AAGTGCCTTAATTTTGTTGCGTAGCAA----AGCCCAGCCGCCCAAGCCAGGCGGGCACCGGAGCTGGATCGCGGACGGG
ATTATGGAATTATTCCTTTCCCTTCCCGTCAAAGCTCAAAACCGCATACTTATCTGTCACACGGGGGCAAGGCGGTGCAG
CTCCACACGGAACGTGCCTAGCTTAGCTTCGCCTACCTAGGTAGCTGCCTGCCGGGCCCTATAAATCCCTCGCGCCGCGG
CGAGCTGCGGAGGGAATATCTCGGCGAGCTGTCTGTCCGTCCGTCGTGTTTCACAAGCTCTCGAAATTTGGTCGCCTCAT
TCACAGCTAGCTAGCCC----CGCGCTCGTGCT-------GCCTGCCGGCCGGTCATGTCGACGACGACGCAGAGCGCGG
CCCTGTCGGCGAAATGCGCGGCGTGGGCGCAGGAGCGGCGGCCGTTCACGCACCCGATCGAGATCCCGGCGGCCTCCGGC
GCGCCGGACGAGCGGAGGGGCCGCGGCGAGGAGGAGGACGGCGGGGAGGTGGAGCCGCCGCACGTGCTGATGGCGCGGCG
CAGGGCGGCCTCCTCGGTGTGCTCCGGCCAGGGGCGGACGCTCAAGGGCCGGGACCTCACGCGCACGCGCGACTCCGTCC
TCCGCATGACCGGCTTCATCGAGAGCTAGCCCGTCCT------------------CCGCCCGTCTCGTTCGTCGCCAACG
GCGCGCGGCCGGGCTCAA-G-------------------------------GTCTTCTTGGGTCGATCCAGTTTG-T---
GTAGAGTAAATAAGATAGCTACGGAGCCTAGGGGCGAATGCCGCTGAATTTTCTTCAATCGGTCCCATTTGTGAATTGGT
TGGAATTGGAAGAGCGAGATGAAATTAAATCCGTTGGTGTAAAACTTATTCTGTTTGTACGCGCGCGCGCGCGTGTGTGA
CATATACTACTCCATATGTAAAAAA-------------------------TAATAAGTACATATGGTCAAAATGCAAATG
CAATGTGGTTTCTTTGTACTGCGCTCCATCTACACATCGCTGAGTCGCTGCTGATTCAGTAACTGCGACGCGCGCGCACA
CTGCACCGGCATCTCTGTGGAC-------TCATTCAAACAACTATTGAATCAGCA--------------ATGGGTAAGTT
CTGGAAATCCCCATGTAAGATAACACCGG-------ATAGGACAAAAATCGCTGGACGGGTTGTTGGGTAATCAGCTTAG
AGAGTCCTAGATATATACCCCATCCA--------CCATGTAATACTACTACTA------TTAATACGTACTTA--CCCTA
TCCAAAATACA--CACCAAAGCTAGCTAGGGGGTTCAAGTCAAGC-----AAAGGACGATGCAACGGGAAGAGCAGGAGG
AGGAAGAATTCCATGAAGCAGACATACTGTGGCCAGA------TGCAGCCCAGGATCCGGG---------------CTAC
TCTGACGACGACGGCGACGAAGGCCATGACGAG------------TACCGCCGTCCCGCCCGTCCGGCCAACGCGCCAAA
CCGGCAGAAACCGTCTTCCCCCATCGACATCCCCGGAAAGACCGGTAGGGCTACTGGTGCAAAAGCGCCGGCTCAGCAGG
CCGGGTTCAGCAAGTTCGGCGCGAGCCTTGCGGGCGCCGGCGCCGGCAGCGTGATGATCGGCAGCCAAGTCTTCGTGCCG
CCGCACGTCATCGTCGATCGGAGGGCCAAGAGGGACATGGCG
>SNPs
-------SSS----------------------------------------------------------------------
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-------------------------------------S------------------------------------------
----------------------------------------S-------------------------------------S-
-----------------------------S-----------S--------------------------------------
----------------SS------SSSSSSSSSSSSSSSSSSSS-----------------------S------------
-------------------------------S-----------------S----------------------S-SSS---
--------------------SS-SS-SSSS--------------------------------------------------
--S-----------------S---------S-------------------------------------------------
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-----------------------------------------------------------S--S-----------------
------------------S--------------------------------------------SS---------------
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-----------------------------------S-S--------------S-------------------S-------
-------------------------S----S--SSSSSSS----------------------------------------
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--------------------------------------S-----------------------------------------
---------------------------------S----------------------------------------------
-------------------------------------------------------------S---S-----S----S---
---------------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS----S---------S-SSSSSSSSS----
---------------------------S----S--S----S--S------------------------------------
------------------------------------------------S-----S------S-S-S-S------SSSSS-
S-----S-------------------------------------------------------S-----------------
--------------SS----S----------------------------------------------------------S
-------------------------------------S--------S------S--SS----------------------
---------------S----------------------------------------------------------------
---------S---------------------------------------SSSSSSSSSS-----S--------SS-----
---S--S----------S---------------------------SSSSS---S--------S---------S--S--S-
----------------------------------------------------------S-SSSSSSSSSSSSSSSS----
---S-S-----------S----S-S-S------S-----------S--------------------S----------S--
------------S-------------------------------------------------------------------
------------------------------------------S--S----------------------------------
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>forward_1950
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----------CTCAGAGCGAGCGATCGAAT--------------------------------------------------
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>reverse_3914
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-------------------------------------------------------------------------GCACTAC
TCTCAGGACGACG-------------------------------------------------------------------
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