>input_sequence_76657
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-----------------------------------------------------------------------ATGCCTCTC
TCGCTCGGCGCCGACCACCTCGCCGCGCCCGGCGCGCGCGCTCCGCCTGCGCGGGTGGGCACGGG---------------
---CATGGGCATGGACACGTCCCTCTCGCTGGGCGGTGCCGCCGCCTACCTCCCGCTCAACGAGAACGACTCCCTCGACA
TGCTCCTCTTCGACGTCCTCCGCGAGGCCTCCGCCGTGGCCGCCGCCTCGCCCTCCTCGTCCTCCTC---TCCCCCGACG
AAGACGGCGACGGCCATTGCCGCCGCTGGCGCCGACGCGATCGAGGGCGGCGGGGCATGCGCGGCCGGGAGGGCCGCGGA
GCGCCCGCACTACCGCGGGGTGAGGCGGCGGCCGTGGGGCAAGTACGCGGCGGAGATCCGGGACCCGTCGCGGCCCGGCA
CGCGCCTGTGGCTCGGCACCTTCGGCACGGCCGAGGAGGCGGCCGTCGCGTACGACCGCGCCGCGTTCCGCCTGCGCGGC
GCCAAGGCGCTGCTCAACTTCCCGCCGGCCGTGGGGGCGCACGAGGCGCGCCGCGGCGGCGCCAATGAGGCGAGGTGA--
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>chr3D_1_TraesCS3D01G291100
ATGGTAATTTGAAGCAAAATTTCCTATAGTCTAAACAAATTGAATAAATGGTCGCGATGGATAAAAACCTCAATGGAATG
AAACAATCTACTGTTGATGTGGAAGCAAATTCGCTAGGAAATAGAAGCAAAATGAATTGAATTGTTCAAGTGCTAGGAAA
TAGAAGCAAAATAAATGTATC-TGCTTCCCAGTCACAAAAAACTGGCCAACAGCATGCATCAGATGGACTAGTTTCTCCT
AGTTTAGTGCAGATTTCAAAGCACGTACGGATGAAGCAGAAAGGAGGAGGTTACGGCTAAAGTGATGTGATGTAGGTCTA
GCGTGATTTCTGAGGAGCAGTTGATGGGAAACAAATCGTAATTAGTGCAGCATGCAAACTAACTAACTACCTAGGTCCAC
CTCTTCAATCACACGGTCCAGGCTGCATCAATGTAACGGTGGACTAGGAGTCTGATATAGAAAG----------------
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-----------CTAAATATCAGTAGTCTGATTCCTAGCACTCGCCCAAAACAAAACACGCACATTGCCAAAATGAAAAAG
GGCGCACACGCCTTGACCGATCGTTGCCGGAGCAGGCAAAACAACTCAACCAGTCCAGAACCTTTGCCCTGCCCGTCAGT
CCCTTCGAGAACAACACTGGCTCACACGACCGCGACTCTTCCCGCCGGGGCCCCTGGCTGCTCGTCCGTCCCATGGCGTG
GCGCTCCGACGACGATCTGTGTCAC-GGATCTACGCTCGTCGCTTGACAAATCCCACCACGGGTCCGCTACACTCCCTTG
TTTCTCTTTGTCCTCCTCTGCCTGCCTTGCCTTCCTCCCCAAGAATCGTGACGCCTGCGGCGCACAGAGCGCCCACGCGG
TCTCGGTCTCCACCTCGTCAATGCTCCCCCAGAAAACCAGTGTCTTGCCAGAGACGCCTTCTCCGGGCTGCTGTAAATAG
CAACATATACCTCTCCCC-GGTGTGCGCAGCAAGCTAAACCCCCACCGCACGCCCCA-CCCGCGCGCAGGCATGCCTCTC
TCGCTCGGCGCCGACCACCTCGCCGCGCCCGGCGCGCGCGCTCCGCCTGCGCGGGTGGGCACGGG---------------
---CATGGGCATGGACACGTCCCTCTCGCTGGGCGGTGCCGCCGCCTACCTCCCGCTCAACGAGAACGACTCCCTCGACA
TGCTCCTCTTCGACGTCCTCCGCGAGGCCTCCGCCGTGGCCGCCGCCTCGCCCTCCTCGTCCTCCTC---TCCCCCGACG
AAGACGGCGACGGCCATTGCCGCCGCTGGCGCCGACGCGATCGAGGGCGGCGGGGCATGCGCGGCCGGGAGGGCCGCGGA
GCGCCCGCACTACCGCGGGGTGAGGCGGCGGCCGTGGGGCAAGTACGCGGCGGAGATCCGGGACCCGTCGCGGCCCGGCA
CGCGCCTGTGGCTCGGCACCTTCGGCACGGCCGAGGAGGCGGCCGTCGCGTACGACCGCGCCGCGTTCCGCCTGCGCGGC
GCCAAGGCGCTGCTCAACTTCCCGCCGGCCGTGGGGGCGCACGAGGCGCGCCGCGGCGGCGCCAATGAGGCGAGGTGAAT
GCTACGTGCGTTCGTTCTCTCGCCGATCGTTCCTCTCTCTCTTAGCTGCGTGTTGTTAGCTTCTTAGTTTAGGCATCGAA
ACATTGAATTCCCATTCTGTAACCGTTCATTCATGCGTGGTGTG---GTCTGTGGTGGACCAATTTGCATTTCGTGGGTA
TCGTCTCTAGCTTCGGGCGAAGGTGCTATTTTGGTGATCTCTCTACGGTTATCAACAGATATCAATCATCAATTGTACAG
TAGTACTACTACCAGTCTCGTCTGAAATTTT-------------ACGAAATCTGGAGAAATGTGTGAACCGGTAATGAGA
AGACAGATTCCCTCGACAAACCTTGTATTCATCTACGATTCCTCGGCTCCTTTGATTTAAAGGAATTTTATAGGATTTCT
GAAGGACTGAGATCCTTAGAATTTTTTTTTTCCTATGTTTGTTCTTTGATTTATAGGATTGGATTCTATAGGAATTTTTC
CTATGGATTCTTTTGTGCTACATTTCATAGGAAATCTAACATCCACTCCAACCTCTTTATATAATTTCTTTGTTTTTCCT
GTGGCATCAAACATTTATTGCTAATCCTATATAATTTAAGTGGGCATGTCACTTCAACCCTATGCTTTTCCTATTGCTAC
GTTTTCAAAATCCTACGAATCAAGGAGGCCCTGAAATTCCTTCACGGATGGTTAGCGTTCTATGATTAGTACGTGAACTC
GTGAA--GACCGATG-AAAATGCACCACGCCCACTTGGCAGACAAAAATCGGCTATAAAGCCACCAAATTGATGT----A
GATGACGATGGCAACTTGGGGACCAAAACTAAAAATTCCACTCCGAAATATTTTCCATTGAAGATTCGCGGCCCCATGGC
CCGCAGCGTACATGAGCTCAGCCGTGACATGATCACCGGCTACGGCGCCACCAGTGCTTCCGTCATTCGTCCAGGATCCT
CTATGGCCAGAGTTGGCACGAAGCAAGAGCCCAGACTATATTTGATCATTTGATACACTTG
>chr2B_1
ATGGTTATTCGAAACAAAATTTCATCTAGTCGATCTAAACAAAACAAATGGTCGCGCTGGACACAAATCTCACCGGATTG
AAACAATCTCCTGTTGATATGGAAGCAAATCCGCTAGGAAATAGAAGCAAAATGAATTA-----TTCAAGTGATAGAACG
TGTTTCCATATATCATAGTATGTGCTTCCCAGTCACAAAAAACTGGCCAACAGCATGCATTAGACGCACCAGTTTCTGCC
AGTTTATTGCAGATTTCAACGTGTGTACGGATGAATCAGCAAGGAGAATTTTACTGCTAAA-----GTGATGTAGGTCTA
GCGTGATTTCTGGGGAGCAGTTGACGGGAAACAGATCGCAATTAGTGCAACATGCA----AACTAACTACCTAGGCCCAC
CTCTTCAATCACACGGTGCAGGCTGCATCAATCTAACGGTGGACTAGTAGTCTGATGGGATGCTAATAGGGTGCTTGGAT
CCAAGGGACTTATTTTAGTCTGACTAAAAATAGTCTCTTTAAGAGGCTAAAGTTTCAAGCACCCCTGACTAAAGAGGGGC
TAAAACTAGTCTTGAGACTAAATTTTTTTAGTCAGGGGTACCCCTACTAAAATGTGGATTAATCCTCTCTCTCCTCATTT
AACTCCTCTCCTTTAACATAGGCGAGTTCTGGATTGGAGGATTTGGAGGATAATAAATGCGCATTAACTTGATTTTGGTC
TCTTTAGTATTTGGATCCAAGCATGGGTGATGCTACCAAGTTTTAGTCCCACTACTTTCAGTCATGAGACTAAAACGTAT
CCAAGCACCCTCTAAATATCAGTAGTCTGATTCCTAGCACTGCCC-----------------------------------
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>chr3B_490
CACTGCACA-----------------------------------------------------------------------
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----------------------------------------------AAAACAGTACACGCACATTGCCAAAATGAAAAGG
GTGCAT-ACGCCTTGACCGATCGTTGCCGGAGCAGGCAAAACAACTCAACCAGTCCAGAACCTTTGTCCTGCCTGTCCGT
CCCTTCGAGAACGGTT--------CACGACCGCGACTCTTCCCGCCGGGGCCCCTGGCTGCTTGTCCGTCCCTTGGCGTG
GCGCTCCGACGGCGATCTATGTCAA-GGATCTATGCTCGTCGCTTGACAAATCCCACCACGGGTCCGCTACACTCCCTTG
-TTCTCTTTGTCCTCCTCC----GCCTTGCCTTCCTCCCCAAGAATCGTGACGCCTGCGGCGCACAGAGTGCCCACGCGG
TCTC------CACCTCGTCAATGCTCCCCCAGAAAACCAGTGTCTTGCCAGGGAAGCCTTCTCCGGGCTGCTGTAAATAG
CAACATATCCCTCTCTCC-GGTGTGCGCAGCAAGCTAACCCCCC----CACGCCCCACCCCGCGCGCAGACATGCCTCTC
TCGCTCGGCGCCGACCATCTCGCCACGCCCGGCGCGCGCGCTCCGCCTGCTCGGGTGGGCGCGGC---------------
---CATGGGCATGGACACGTCCCTCTCGCTGGGCGGTGCCGCCGCCTACCTCCCGCTCAACGAGAACGACTCCCTCGACA
TGCTCCTCTTCGACGTCCTCCGCGAGGCCTCCGCCGTGGCCGCCGCCTCGCCCTCCTCCTCCTCCTCCTCTCCCCCGACG
AAGATGGCGGCGGCCATTGCCGCCTCTGGTCCCGCCACGGTCGAGGGCGGCAGGGCATGCGCGGCCGGGAGGGCCGCGGA
GCGCCCGCACTACCGCGGGGTGAGGCGGCGGCCGTGGGGGAAGTACGCGGCGGAGATCCGGGACCCATCGCGGCCCGGCA
CGCGCCTGTGGCTCGGCACCTTCGGCACGGCCGAGGAGGCGGCCGTCGCCTACGACCGCGCCGCGTTCCGCCTGCGCGGC
GCCAAGGCGCTGCTCAACTTCCCGCCGGCCGTGGGGGCGCACGAGGCGCGCCGCGGCGGCGCCGATGGGGCTAGGTGAAT
GCTACGTG----CGTTCTCTCGCCGATTGTTCCTCTCTCT--TAGCCGTGTGTTGTTAGCTTCTTAGTTTAGGCC-----
-----GAATTCCCATTCTGTAACCGTTCGTTCACGCGTGGTGTG---GTCTGTGGTGGACCAATTTGCATTTCGTGG---
----------------------GCGCTCTTTTGGTGATCTCTCTACGGTTATCAACAGATATCGATCATCAATTGTACAG
TAGTACTACTACTAGTCTCGTCTGAAATTTTTACGAAGTGTAAGACGAAATCTGGAGAACTGTGTGAACCGGTAACGAGA
AGACAGATTCCCTCGACAAACATTGCATTCATCTGGGACGATTCCGACTGAAAGTTCCTTGCA-----------------
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-------------------------------------------------------------------------TGAACTC
GAGAAGAGACCGATGAAAATGCACCCACGCCCACTTGCCAGACAAAAATCGGCTATAAAGCCACCAAATTGATGTTCCTA
GATGACGATGGCAACTTGGGGACCAAAACTAAAA----------------------------------------------
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>chr3A_577
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--------------------------------------------CTCAGCCAGTCCGGAACCTTTGTCCTGCCTGTCCGT
CCCTTCGAGAACAACACTT-------------CGACTCTTCCCGCCGGGGCCCCTGGCTGCTCGTCCGTCCCATGGCGTG
GCACTCCCACGGCGATCTATGTCACGGGATCTACGCTCGTCGCTTGACAAATCCCACGACGGGTCCGCCACACTCCCTTG
TTTCTCTTTGTCCTCCTCC----ACCTTGCCTTCCTCCCCAAGAATCGTGACGCCTGCGGCGCACAGAGTGCCCACGCGG
TCTC------CACCTCGTCAATGCTCCCCCAGGAAACCAGTGTCTTGCCAGAGACGCCTTCTCCGGGCTGCTGTAAATAG
CAACATATACCTCTCTCGGGGTGTGCGCAGCAAGCTAAACCCCCACGCCCCGCA------CGCGCGCAGACATGCCTCTC
TCGCTCGGCGCCGACCACCTCGCCGCGCCCGGCGCGCGCGCTCCGCCTGCGCGGGTGGGCGCGGCCATGGGCATGGGCAT
GGGCATGGGCATGGACACGTCCCTCTCGCTGGGCGGTGCAGCCGCCTACCTCCCGCTCAACGAGAACGACTCCCTCGACA
TGATCCTCCTCGACGTCCTCCGCGAGGCCTCCGCCGTGGCCGCCGCCTCGC---CCTCCTCCTCCTC---TCCCCCGACG
AAGACGGCGAGGGCCATTGCCGCCTCTAGCCCCGACGCGAGCGAGGGCGGCGGGGCATGCGCGGCCGGGAGGGCCGCGGA
GCGGCCGCACTACCGCGGGGTGAGGCGGCGGCCGTGGGGCAAGTACGCGGCGGAGATCCGGGACCCGTCGCGGCCCGGCA
CGCGCCTGTGGCTCGGCACCTTCGGCACGGCCGAGGAGGCGGCCGTCGCCTACGACCGCGCCGCGTTCCGCCTGCGCGGC
GCCAAGGCGCTGCTCAACTTCCCGCCGGCCGTGGGGGCGGACGGGGCGCGCCGCGGGGGCGCCGATGGGGCAAGGTGAAT
GCTACGTG----CGTTCTCTCGCCGATTGTTCCTCTCTCT--TAGCTGTGTGTTGTCAGCTTCTTAGTTTAGGCC-----
-----GAATTCCGATTCTGTAACCGTTCATTCATGCGTGGTGTAGTAGTCTGTGGTGAACCAATTTGCATTTCGTGG---
----------------------GTGCTATTTTGGTGATCTCTCTACGGTTATCAACAGATATCAATCATCAATTGTACAG
TAGTACTACTAGC---CTCATCTGAAATTTTTACGAAGTGTAAGACGAAATCTGGAGAACTGTGTGAACCGGTAATGAGA
CGACAGATTCCGTCGACAAACATTGCACTC-----------------CTGAAAGTTCCTTGCA-----------------
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-------------------------------------------------------------------------TGAACTC
GTTTAGTGACCGATG-AAATGCACTCACGCCCACTTGGCAGACAAAAATCGGCTACAAAGCCACCAAATTGGTGTTCATA
GATGACGATGGCAACTTGGGGACCAAAACTAAAAATGCCACTCCGAAATATTTTCCATTGAAGATTCGCGGCCCCATGGC
CCGCAGCGTACATGAGCTCAGCCGTGACATGATCACCGGCTACGGCTGCACCAGTGCTTCCGTCATTGGCCCATGATCCT
CTATGGCCAGAGTT-----------------------------------------------
>SNPs
-----S---S---S---------S-S-----S-SSS---SSS--S-----------S----S-S---S----SS---S--
---------S--------S-----------S---------------------------SSSSSS--------S---S-SS
-SSSSS--S-SSSS--SSSSS---------------------------------------S---S-S--S-------S-S
------S------------S-SSS-----------S---S------S-SS----S------SSSSS--------------
------------S-----------S--------S----S----------S------SSSS---------------S----
-----------------S--------------S--------------S--------SSSSSSSS----------------
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-----------------------------------------SS--S------SS------------------------S-
-SSSSSS-----------------------------------------------------------S------S---S--
------------------SSSSSS--------------------------------------------------------
-----------S------S-------------------------------------------------------------
------------------SSSSS----------------------------------------------S----------
----SSSSSS----------------------------------------------------------------------
---------------S------------------------------SS---------------------S----------
------------------------------------------------------------S---S---------------
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----------------------------------------------------------S---------------------
------------------------S-----S-------------------------------------------------
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-------------------------------------------------S------------------------------
---------------------------------------------------------------S---S---S--------
--------SSSS---------------S------------SS------S-------------------------SSSSSS
SSSSS------------------------------------------------------------------------SSS
SSSSSSSSSSSSSSSSSSSSSS----------------------------------------------------------
-----------------------------------------------------------S--------------------
---------------------S---S--------SS--SSSS--S-SSSSSSS-S-SSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS-------
-------------------SSSSS--------------------------------------------------------
------------------------------------S-------------------------------------------
----------------------------------------------SS-------------------S-S---S------
--------------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
>forward_846
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--------------------------CTGATTCCTAGCACTCGCCC----------------------------------
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>reverse_2092
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-----------TTCGGGCGAAGGTGCTATTT-------------------------------------------------
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