>input_sequence_77906
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----------------------------------------------------------------ATGGCGTCCGGCAAGG
TGCACACGCACAAGGCGTTCCTCCTCTGCAACTACGCGCTGCTGGGCGCGGCCTCCAGCTGCATCTTCCTCACGCTCTCC
CTCCGCCTGCTGCCCTCCCCGTGCGGCCTGCTCCTCATCTTCCTCCACGCCCTCACCGCCGTCTTCTCCGCCGCGGGCTG
CTCCGGCTCCTTCACGGCCGGCCCGGCCAACCCGGCGCCCTGGCACACCGCGCACACGGCGGGCGCCGCGCTCACCGCCA
TCTTCCAGGGCGCCGTCGCGCTCCTCGCATTCACCCGCACCGCCGACTTCCTCGCCGAGCTCCAGTCCTACGTCCGCGAC
GACGACGGCGCCGTCATCCTCAAGATGGTCGGCGGGCTCGGCACCGCCATTTTCGTCCTCGAGTGGGCCGCCCTCGCGCT
CGCCTTCTCCCTGCGCCTCGACGACGCCGAGGACGACGACGGCCAGGACGACCTCCGCCGCGCCAAGAACTGGGCCGACG
CCTACCATGTCTGA------------------------------------------------------------------
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>chr3B_1_TraesCS3B01G431100
CATGGGCATTCCATTATTATTAAATCTGAAAAATATGAGTTTAAAATTTCCCTTTTTTGGTTTTGCG-AAAAGGCCAAAA
ACCATTTATCAAGTAGCACAAACCCTTATAAAAACACCCTTATAGAAATTAAAAAAATACATTCAAATGATTGGGGGTGC
CGAAGTCTTCTTCCTCCTGCATTCAAAGTCTTCTAAAAAAATG-------------------------------------
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-------------------------------TTTCTTACAAGTGTTTCTCAAACATATACTGTATATGTTAGGACACAGA
TTGTAACGTGAGATGACTTGAGGGGGTGTAAATGCAAAAATGGGCTCATGGTTTTTTTCATACTCGATTTATGG------
--------------------AGTTTTCTTTAGAAATGAATTAATGTTGTTTTCAATTT-TTTTATGCCAAATTGAATAAA
GTCTCTGCAAAAAACCAAAAAAAGTCACCGTAATGGTTTTATCTTAAAAAAAGAGGGTTTTAATTGAGGAAAAAGTTTAA
AATAAACCTTGAAGTTGTAGATGAAAGCTAAATCAAACCCTGAACTTTGAATCCCTAAAATTGACACTCTGAACTTGTAA
TCCTGGTCTATTTTGAACCCTAGACCTGTTTGGCGCACTGGGAAGAATACAATCCCGGCCGGGATTCCAGCTACTCTCGC
GGACAAGAATTTGGGCCGGCCCACATAACACAACAAGAATTCGTGAGGTTTAAAAAATGTTCGCACATTTATAAAATTGT
TCAAAAGTTAAAAACAAGTCGAAAGAAGGCGACTGCCCACTGGCCAGGCTCTCTGACCGAGCTGGCTGGCTGCCCACTGG
AAGGCAAAGCAGAGCAAAGCAACGGCTCTCTGCCGACTAGCCGTTGCCCTTGGCGCCGCGCCCCCAACGGCCATCTCCCC
CGCGCCGCGCGGCATAAAACCCGTCCACCCCTCTCCTCCACTCCCCACCCCTCATCCCCACTCCCGATCCAGCCCACCAA
GC-AAGAAAACCTCCCTCGATCCGACCACGAGCACGAGGCAACTCCCG-------CTGGCTGCGATGGCGTCCGGCAAGG
TGCACACGCACAAGGCGTTCCTCCTCTGCAACTACGCGCTGCTGGGCGCGGCCTCCAGCTGCATCTTCCTCACGCTCTCC
CTCCGCCTGCTGCCCTCCCCGTGCGGCCTGCTCCTCATCTTCCTCCACGCCCTCACCGCCGTCTTCTCCGCCGCGGGCTG
CTCCGGCTCCTTCACGGCCGGCCCGGCCAACCCGGCGCCCTGGCACACCGCGCACACGGCGGGCGCCGCGCTCACCGCCA
TCTTCCAGGGCGCCGTCGCGCTCCTCGCATTCACCCGCACCGCCGACTTCCTCGCCGAGCTCCAGTCCTACGTCCGCGAC
GACGACGGCGCCGTCATCCTCAAGATGGTCGGCGGGCTCGGCACCGCCATTTTCGTCCTCGAGTGGGCCGCCCTCGCGCT
CGCCTTCTCCCTGCGCCTCGACGACGCCGAGGACGACGACGGCCAGGACGACCTCCGCCGCGCCAAGAACTGGGCCGACG
CCTACCATGTCTGAGCGGCGAGCCTCCGCGCTCCGTGCACCTTCGCCCGCTGGAGCGGGCGAGCGGCGCCTCCATCCAAG
ATGT-GTCGATTTGGTGTTGTTGCTGTCGCTATTCTTTTGTGCTAGTAGTACTGTGTGTACCGTGATGATCTCAGATTCT
TTTGTACTATGATATGATGTCAAGGCAAATGTATATTGCTTTTGACCCCATTTAATCGAAGAAATATATTTATATTGCTT
TGGATTTGGGTACTTGGTTGCAAGTGCATGATTTATGCAGTGAATTCAGTACTACAACCTGGGAAAACTGG-------TG
TCAGAGTTCTTGCTGGAACCAAACAGGTGTCCCCCTGGCTCGCTTTGTCTGGTCTGTCTTGAGTGCGAGTGAGCCGGAGC
TGGGCAGCTCTATTGGTGTTGGTGTGTGGATGCTAGGGTGTAACCTGATTAGGCC----ATTCAGAAATATCTTCGATG-
------------CTATGGTGCCGCCGT----------GGCAGCAAGCAGCGGGCGATCGAGACCCAGCTACTGACTGATA
TTGCGCAA----CTAGGGACAGATAGGTGGATTGGATTATGTGT----CTCGCTGACTTCAGTGCTCCACTTTTTTTCTG
TGTGTTTTGCTCGGTTGGCCCCCTTGGAGCATCATCCCTTTTGGATTTTTCTTCGAGGTAAATGCACCATGGTCCTTGAA
TTTGCCACGGCCGATTACCTCTTTTTTTGTGTGACATG----GCTGATCACTTTGGTGTCTGTAGTTGTAGCATACAGAA
AAATGGTAAAACTGGCAGACCTGAGGGGGTCAAATACTAAATTTATACTCATCTAAACCCTCTAAAAAAATTCCTACACA
CTTTTTGCTTAGGCTGGGGGGCCACAACACCTCCAGGAGCACACATAGCTCCGCCACTGCCTGCAGGCAATACATGTGTT
CGATCCGACAAACGCGGGTTATCCCACTCCAATGAACGATGTTTCATGACTGTTCCGGCTATGTCCGTAACAAAATATAT
TACACTAAAAATGTTCATGTA
>chr3D_5
----GGCTTTCAATTATTATTAAATCTGAAAAATAAGTGGTTAGGTTTTTCTTTTTTTGGTTTTGTTAAAAAGGCCAAAA
ACCATATATTAAGTAGCACAAACCCTTATAAAAACACCCTTATAGAAAATTTAAGAATACATTCAAATTCCTGGGGGTGC
C-------------TCCTGCATCCACCAACGACGCGCCATGAGCAAAGCTCGTTGCCGCTCCTGGGCCTCTGTCCCAGTG
GAGCAAACTTGTTTATATCCAGGAGTTTGTAGAAGCAACGACTGGAATGTCGTCGATGTATACCAGAAGACGTCAGCGGT
TGCGATCTGCATAGCAAACCGTCGCCCGAAAAAGAAAACGATAGATATGGCCTGTAGAACATCCAAGTTTGGGTCAAACG
GAGTCAAAGAACACAAACCTTGCACGCTCTCCGATGAGACTAACACTTGCCAACCTTCGCCGGTTCGGAGCTAAAGTCGG
ACGACCAAGACGTACAGTCAGAGGACCATGTTGGCCACTCGGCAGGACAACACAGCCGAGACAATCCTATAGAAAAAATA
CACCAAAACCGAAGAACCATATCGAGTGACACACATCCCTACGATACATGGAAGCATCATCAAAACGAGGGCGAGACAAG
CATACCTTATTCCCACGGTAGATCGCCTTGGGACAAGGGTAAGCACTGTCTTTTGATAGTGTTTCCTGCAAAAAAATATA
CTCCCTCCGTTCGTTTTTATAAGGCGTTTAAGACAGCTGGTTTTGAACTGTTTAGAGCACTGTCTGAACAGGCTTAAACG
TCTTATATAAGTGAACAGAGGGAGTATATTATTTCTTACAATATTGTTTCTCCTAGAACA--TATATGCTAGGACACAGA
TTCTAACTTGGGACAACTTGAGAGGGTGTAAATACAAAGCGGGTTCATACGTTTTTTTTATAACTGAAACGGACTCATAG
TTATCATACTTGAATTATTTAGATTTCTTTGGAAATGAATTAAGGGCGTTTTCAATTTATTTTATGCCAAACTGAATAAA
GTC-----------------------ACCCTCATGGTTTTACCTTACAAAAAGAGGGTTCTAATTAATTTGGTTTACTTA
GAAAAA--------------------------------------------------------------------------
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------------------CCGAAAGAAGGCGACTGCCCACGGGCCAGGCTCTCTGACCG----GGCTGGCTGCCCACTGG
AAGGCAAAGCAAAGCAA-----CGGCTCTCTCCCGACTAGCCGTTGCCCCTAGCGCCGCGCCCCCAACGGCCATCTCCCC
CGCGCCGCGCGGCATAAAACCCGCCCGCCCCTCTCCTCCACTCCTCACTCCTCATCCCCACTCCCGATCAAGCCCACCAA
GCAAGCAAGT-CTCCCTCGATC------CGAGCACGCGGCAACTCCCGACCGTCCCCGGCTGCGATGGCGTCCGGCAAGG
TGCACACGCACAAGGCGTTCCTCCTCTGCAACTACGCGCTGCTGGGCGCGGCCTCCAGCTGCATCTTCCTCACCCTCTCC
CTCCGCCTCCTGCCGTCCCCGTGCGGCCTGCTCCTCGTCTTCCTCCACGCGCTCACCGCCGTCTTCTCCGCCGCGGGCTG
CTCCGGCTCCTTCACGGCCGGCCCGGCCAACCCGGCGCCCTGGCACACCGCGCACACGGCGGGCGCCGCGCTCACCGCTA
TCTTCCAGGGCGCCGTCGCGCTGCTCGCATTCACCCGCACCGCCGACTTCCTCGCCGAGCTCCAGTCCTACGTCCGCGAC
GACGACGGCGCCGTCATCCTCAAGATGGTCGGCGGGCTCGGCACCGCCATCTTCGTCCTCGAGTGGGCCGCCCTCGCGCT
CGCCTTCTCCCTGCGCCTCGACGACGCCGAGGACGACGATGGCGACGACGACCTCCGCCGCGCCAAGAACTGGGCCGACG
CCTACCATGTCTGAGCGGCGAGCCTCCGCGCTTCCTGCATCTTCGCCCGGTGT----GGGGAGCGGCGCCTCCATCCAAG
ATGTTGTCGATTTGGTGTTATTGCTGTTGCTATTCTTTTGTGCTACTAGTACT---------G---TGATATCACATTCT
TTTGTACTATGATATGATGTCAAGGCAAATGTATATTGCTTTTGACCCCATTTAATCGAAGAAATATATTTATATTGCTT
TGGATTTGGGTACTTG--------------ATTTATGCAGCCAATTCAGTACTACAACCTGGGAAAACTGGTGCTATCTG
TCAGAGTTCTTGCTGGAATCAAACAGGTGTCCCC-TGGCTCGCTTTCTCTGGGCTGTCTTGAGTGAGCCGGAACTG----
-----------------------------------------AACCTGCTTAAGCCATTTATTCAGAAATATCTTCGATGC
AACAGTGGCGGTCTATGGTGCCGCCGTGCAGGTACTTGGCAGCAAGCAGCGGGCGATCGAGACCCAGCTACTGATGAGTA
CTATTGCGCGAGCTAGGGACAGATAGATGGACTGGGTTATGTGTGTGCCTCGCTGACTTCAGTGTTCCACTTTTCTTT--
TGTGTTTTGCTCGGTTTGCCCCCCTTGGAGCAT---CCCTTTGGATTTTTCTTGGAGGTAAATGCACCATGGTGCTTGAA
TTTGCCACGGCCGATTACCTTTTTTTTTGTGTGGTGACCATAGCTGATCACTTTGGTGTCTGTAGTTGTGGCATACAAAA
AAGTGGT-------------------------------------------------------------------------
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>chr3A_713
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------------------------------------------------------------------------------TA
GAAAAA--------------------------------------------------------------------------
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------------------TCGAAAGAAGGCGACTGCCCACTGGCCAGGCTCTCCGACCG----GGCTGGCTGCCCACTGG
AAGCCAAAGCAAAGCAA-----CGGCTCTCTCCCGACTAGCCGTTGCCCTTGGCGCCGCGCCCCCAACGGCCATCTCCCC
CGCGCCGCGCGGCATAAAACCCGCCCACCCCTCTCCTCCACTCCTCACTCCTCATCCCCACTCCCGATCCAACCCACCAA
GCAAAGAAAACCTCTCTCGATCCGACCACGAGCACGAGGCAACTCCCG-------CCGGCTGCGATGGCGTCCGGCAAGG
TGCACACGCACAAGGCGTTCCTCCTCTGCAACTACGCGCTGCTGGGCGCGGCCTCCAGCTGCATCTTCCTCACGCTCTCC
CTCCGCCTCGTCCCATCGCCCTGCGGCCTGCTCCTCGTCTTCCTCCACGCGCTCACCGCCGTCTTCTCCGCCGCGGGGTG
CTCGGGCTCCTTCACGGCCGGCCCGGCCAACCCGGCGCCCTGGCACACCGCGCACACGGCCGGCGCCGCGCTCACCGCCA
TCTTCCAGGGCGCCGTCGCGCTCCTGGCATTCACCCGCACCGCCGACTTCCTCGCCGAGCTCCAGTCCTACGTCCGCGAC
GACGACGGCGCCGTCATCCTCAAGATGGTCGGCGGGCTCGGCACCGCCATCTTCGTCCTCGAGTGGGCCGCCCTCGCGCT
CGCCTTCTCCCTGCGCCTCGACGA------GGACGACGACGGTGACGATGACCTCCGCCGCGCCAAGAACTGGGCCGACG
CCTACCATGTCTGAGCGGCGAGCCTCCGCGCTCCCTGCATCTTCACCCGCTGT----GGGGAGCGGCGCCTCC-------
-----------TTGGTGTTACTGCTGTCGCTATTCTTTTGTGCTAGTAGTACTGTGTGTACCG---TGGTCTCAGATTCT
TTTGTACTATGATATGATGTCAAGGCAAATGTATATTGCTTTTGACCT-ATTTAATCGAAGAAATATATTTATATTGCTT
TGGATTTGGGTACTTGGTTG------------------------------------------------------------
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>SNPs
SSSS---S---S-----------------------S-S-S---SSS---S-S-------------SS-------------
-----S---S--------------------------------------S-SS--S-------------SSS---------
-SSSSSSSSSSSSS--------S--SSSS-SS-SSSSS-SSS--------------------------------------
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-----------------------------------------SSS-S-S--SSSS-S-SSSSS------S-----------
--S----S--S--SS-------S----------S----SSS--SSSSSSS--------S---SSS--SSSSSSS------
----------------------S-------S------------S-SS------------------------S--------
---SSSSSSSSSSSSSSSSSSSSSSS---S-S---------S----S------------S-----S-SSSSSSSSSS-S-
S-S---SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSS-----------------------------------------SSSS-----------------
-----------S-----SSSSS---------S------------------------------------------------
-----------------------S--------------------S---S-------------------------------
--------------------------------------------------------S-----------------------
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--------S-----S---------------------S-------------S-----------------------------
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--------------------------------------------------S-----------------------------
-------------------------------------------S-S----------------------------------
----------------------------------S----S------------SSSSS--S--------------------
-------------------S-------------------------------------------SSS--------------
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--------------------SSSSSSSSSS----------SS--------------------------------------
------------------S---------------S-----------S-----S------------S-SSS--S-S-SSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS------S---S----------------------------
--------------------------------------------------------------------------SSSS--
S-SSSSSS------------------S----S---S----------------------------S---------S--SSS
----------------S------S-S-SSSSSSSSS--S--------------S-------------------S------
--------------------S------------SSSSS-------------------------------S-------S--
--S----SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSS
>forward_1280
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------------------------------------------------------------GGGATTCCAGCTACTCTCGC
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>reverse_2968
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-------AAAACTGGCAGACCTGAGGG-----------------------------------------------------
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