>input_sequence_74149
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--------------------------------------------------------------------ATGAAGGTTCTG
CAGGCTCTTAATTTCCATCCTCCCTGGCTTGTTTCTGAGATTTTATCGGTCACTCACAGTCACCGTTTCTGTTATTCTGA
ACCAGATGGTGCTTAAGGTGCCGATGGTCTGCAAGAAGTGCAAGTCTTGCGTCCTTACGATTGTGTCCAAGGTCAAAGGT
CTGTAATAT---TCTCTCTATGGGCGTGATTCGCTCGTCCTCCTCTGTAACTTACTTGAAG------GTCGTGTGTGTCC
ATGGCAGGGGTCAAGTCGATGGCATACGACGAGGAGAAGAGCACGCTGACGGTGGTGGGGGATGTGGACGTGGTGGTGGT
CGTCGACGCGCTGCGCAAGGGGAAGCACCCGGCGACGGTGGTGACGGTGGGCGACGAGAAGAAGGAGGCGGAGGAGAAGA
AGAAGAAGGAGGAAGAGGAGAAGAAGA------AGAAGGAGGCCGAGGAGAAGAAGAAAAAGGAATGC---------ATG
CAGAAGCACTGCCTCAAGGCTTGCTCGCCGCCACTCTACTGCCCCAAGGCTTGCTCGCCGCCACGCCACTGCCCGCCGCC
ACCCCACTGCCCGCCGCAATCCTA---CTGCTACGTCGACGACT---CCGGCCCCTGCACCATCATGTGA----------
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>chr3B_1_TraesCS3B01G302800
TTTTAAAATTTATTTACAATTTTTAAAAAACAAATATTAGTATTTTATGAACAAAACAGGAAAACTAGAAACCCTAACTA
AAACCGTGCAAAAAAAGAAACATAAACCAAAGAGTGAAGGTGCTTTTTTTTCCTTGGCGTTATCTCTCTAGAACAAGAAG
AAGAAAACATGCGTAGTAGTAAAATCAGATGTAGTTCTTGAGGGCTGTAGTTCGAATCTGGAAGAGGACATTCTTTTTTT
GATTATTATAAAACTAAAAAGCGCATGTGAGGGCTGTTCGCCGGGTATTATACGAACCTACAGTGTATATGTAGAAACGT
GAGTATAATTTATGAAAAGTTCATACTACCCTTTATACGTTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGGGGGAGGGGGAGGGGGTGTAC
CGAAGCATTGCTCTTCTTTTTGCAGGTGTTAGATAATTCTCATCATGTCGACATCCGATGGCGAGTCGGCTGAATACATA
CGGGCTGCACACCTACTACTACGACTATTGTACTGACT-TAAACTTATTTCAAATCTCCTTGTAGAAACAACAATATGAA
ATGCATTTGCATAAGTTGGTTTTGCACTGCGGCAATGATTGTTGCAATTGACCAAGCCCAGAGTCCGAACCACCAAGGGA
---------------------------GTATAAAGCCACCCATTGGAGAGGAGGCTTTCGGGAGAGCTTGCATCCAGGCA
CATATACCGAGTACACCAATCAGCAACCTTCAAGTATCCTAGTTTAATCTCGCCGCGAGCCCGCGAAGATGAAGGTTCTG
CAGGCTCTTAATTTCCATCCTCCCTGGCTTGTTTCTGAGATTTTATCGGTCACTCACAGTCACCGTTTCTGTTATTCTGA
ACCAGATGGTGCTTAAGGTGCCGATGGTCTGCAAGAAGTGCAAGTCTTGCGTCCTTACGATTGTGTCCAAGGTCAAAGGT
CTGTAATAT---TCTCTCTATGGGCGTGATTCGCTCGTCCTCCTCTGTAACTTACTTGAAG------GTCGTGTGTGTCC
ATGGCAGGGGTCAAGTCGATGGCATACGACGAGGAGAAGAGCACGCTGACGGTGGTGGGGGATGTGGACGTGGTGGTGGT
CGTCGACGCGCTGCGCAAGGGGAAGCACCCGGCGACGGTGGTGACGGTGGGCGACGAGAAGAAGGAGGCGGAGGAGAAGA
AGAAGAAGGAGGAAGAGGAGAAGAAGA------AGAAGGAGGCCGAGGAGAAGAAGAAAAAGGAATGC---------ATG
CAGAAGCACTGCCTCAAGGCTTGCTCGCCGCCACTCTACTGCCCCAAGGCTTGCTCGCCGCCACGCCACTGCCCGCCGCC
ACCCCACTGCCCGCCGCAATCCTA---CTGCTACGTCGACGACT---CCGGCCCCTGCACCATCATGTGAGCGAGAGGGC
AGATCATCGACCCGGCGCCGCCGTA---TATATACAGCCGATCGTTGTTGCCGGTGCAAATCAAGCCACTCCTCCAGGCC
AGGCACACCAATTAATTCGTGCGTACGTCTTGTTCATCGTTCAGAAGATTCAGAGCTTGCATGCACATTATTTTTCTTTT
CCTGTATCTTTTCCGGTTCCTGTGATCAAGAATTGTATGTCTCGACGGAGACCTTCTTTTACTACTCACAAGTCACAACT
CGTGTACTTGCAATCTGCAAATGAGCTGTTTGGTTCATGGCAATGCGACGACTTGGATATAAGATTGGTGGTGGGGTACT
TAGCTTCACCTAATAATGTGACAAGTTGATTACTCTACCGGTCGGCATTGCCAAATGGAACAGTTTATTGCAACAATTTG
TCCCTTTTGACGCTGGAACTTTCATATGCCGTCGCCGATTGGTACTCTCCGGGAAACAAATAATTTCTGCAGATCACGCA
ATGATTCAGGTGCACTTTTACAATTCTCCAACTTACCTCTTGACCATTGAAAAAAGAACACTCTTGAGACTTACTCCTTC
CGTTTTTAAATATTTGTCTTTCCAGAGATTTCAACAAGTGACTACATATGCAGCAAAATGAGTGAATCTATACTTTAAAA
TATGTCTATATACATCCGTATATGATAGTTTATTTGAAATCGCTAAAAAGACAAATATTTAGGAGCGGAGGGAGTAGGAG
CTAAGAGCATCTCCAGCCGTTCGGCGCCC-CAGGGACTGAAATATCGCCGCCTGGGGGCTAGCCGGCGCTATTTCCACCG
TGGGGGCAATTGGGTTCCCAACCGCCGCCCGAAGTTGGCCCCAGATGTCCTTTTTTGAAATCCAAATTCGGCTAAATTTT
GTACAAAATGACACAAATTTGGGCGAAATTTAGGCAGTTTTCATTGATATTTGTACAAAATTAAAGACGTAACTTAAAAA
CTTAGAAAAATAAAACTATGCCGCCGCCGCCTCG
>chr3A_653
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------------CTTCTTTTTGCGGGTGTTACATAATTCTCATCATGTCGACATCCGGTGGAGAGTCGGCTGAACACATC
CGGGCTGCACACCTACTACTACGACTAGTTACTGACTTA-AAACTTATTTCAAATCTCCTTGTAGAAACAGCAATATGAA
ATGCATTTGCATGAGTTGGTTTTGCACTGTGGCAATGATTGTTGCAATTGACCGAGTCCAGAGTCCAAACCACCAAGGGA
---------------------------GTATAAAGCCA-------GAGAGGAGGCTTTCGGGAGAGCTTGCATCCAGGCA
CATATACCAAGTACACCAATCAGCAACCTTCAAGTATCCTAGTTTGATCTCGCCGCGAGCCCGTGAAGATGAAGGTTCTG
CATGCTCTTAATTTCCTTCCTCCCAAGCTTGTTTCTGAGATTTTATTGGTTAC------TCACCGTTTCTGTTATTCTGA
ACCAGATGGTGCTTAAGGTGCCGATGGTCTGCAAGAAGTGCAAATCTTGCGTCCTTACGATTGTGTCCAAGGTCAAAGGT
CTGTATATTCTCTCGCTCTATGGCCTTGATTCGCTCGT----CTCTATAACTTACTTGACAGGTCGTGTCGTGTGTGTCC
ATGGCAGGCGTCAAGTCGATGGCATACGACGAGGAGAAGAGCACGCTGACGGTGGTGGGGGAAGTGGACGTGGTGGTGGT
CGTCGACGCGCTGCGCAAGGGGAAGCACCCGGCGACAGTGGTGACGGTGGGCGACGAGAAGAAGGAAGCGGAGGAGAAGA
AGAAGAAGGAGGAAGAGGAGAAGAAGA------AGAAGGAGGCCGAGGAGAAGAAGAAGAAGGAATGCCTGGAGAAGATG
CAGAAGTGCTGCCCCAAGGCTTGCCCGCCGCCACTCTACTGCCCCAAGGCTTGCTCGCCGCCACGCCACTGCCCGCCGCC
ACCCCGCTGCCCGCCGCAATCCTA---CTGCTACGTCGACGACT---CCGGCCCCTGCACCATCGTGTGAGCGAGAGGGG
AGATCATCGACCCGGC--------------------GCCGATCGTTGTTGCCGGTGCAAATCAAGCCACTCCTCCAGGCC
AGGCACACCAATTAATTCGTGCGTACGTCTTGTTCATCGTTCAGAAGATTCAGAGCTTGCATGCACACTA-TTTTCTTTT
CCTGTATCTTTTCCGGTTCCTGTGATCAAGAATTGTATGTCTCCACGGAGACCTTCTTTTACTACTCACAA-------CT
CGTCTACTTGCAATCTGCAAATGAGCTGTTTGGTTCATGACCATGCGACGACTTGGATATAAGATTGGTGGTGGGGTTCT
TAGCTTCACCTAATAATGTGACAAGTTGATTAGTCTACCGGTCGGCATTGCCAAATGGAACAGTTTATTGCAACAATTTG
TCCCTATCGACGCTCGAACTTTCATATGCCGTTGCCGATTGGTACCCTCCGGGAAACAAATTATTTCTGCAGATCACGCA
ATGATTCAGGTGCACTTTTACAATTCTCCAACTTACCTCTTGACCATTGAAAAAAAAACACTCTTGAGACTTACTCCCTC
CGTTTTTAAATATTTGTTTTTCTAGAGATTTCAACAAGTAACTACATACGAAACAAAATGAGTGAATCTACGCTCTAAAA
TATGTCTATATACATCCGTATATGATAGTTCATTTGAAATCTCTAAAAAAATAAATATTTAGAAGCGGATGGAGTAGGAG
CTAAGGGCATCTCCAGCCATTCGGTGCCCTCAGGGACTGAAATATTGCCGTCTGGGGGCTAGCCGATGCTATTTCCACCG
TGGGGGCGATTGGGTTCCCAACCGCCGTCCCAAATTGATCCCAGACGCCATTTTTTGAAATCCAAATTCGGCTAGATTCA
-TACAAAATGACACAAATTTGGACGAAATTCAGGCGGTTTTCATTGATATTTGTACAAAATTAAAGACATAACTTAAAAA
CTTAGAAAAATAAAACTACGCTGCCGCCGCC---
>chr3D_653
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------------CTTCTTTTTGCGGGTGTTACATAATTCTCATCATGTCGACATCCGATGGAGAGTCGGCTGAATACATA
CGGGCTGCACACCTACTACTACGACTAGTTACTGACTTATAAACTTATTTCAAATCTCCTTGTAGAAACAACAATATGAA
ATGCATTTGCATAAGTTGGTTTTGCACTGTGGCAATAATTGTTGCAATTGACCAAGTCCAGGGTCCAAACCACCATGGGC
ATTATGTTCTACATGGTCCTCACTTGTGTATAAAGCTAGCCATTGGAGGGAAGGCGTTCGGGAGAGCTCGAGTACAGGCG
GATATACCAAGTACACAAATCAGTAATCTTCAAGCATCCTAGTTTAATCTCGCCGCGATCCCGCGAAGATGAAGGTTCTG
CATGCTCTTAATTTCCCTCCTCCCTGGCTTGTTTGTGAGATTCTATCGGTCAC------TCACCGTTTCTGTTATTCTGA
ACCAGATGGTGCTTAAGGTGCCGATGGTCTGCAAGAAGTGCAAATCTTGCGTTCTTACGATTGTGTCCAAGGTCAAAGGT
CTGTATATTCTCTCCG----TGGCCTTGATTCGCTCGT----CTCTGTAACTTACTTGACACC-----TCGTGTGTGTCC
ATGGCAGGGGTCAAGTCGATGGCATACGACGAGGAGAAGAGCACGCTGACGGTGGTGGGGGATGTGGACGTGGTGGTGGT
CGTGGACGCGCTGCGCAAGGGGAAGCACCCGGCGACGGTGGTGACGGTGGGCGACGAGAAGAAGGAGGCGGAGGAGAAGA
AGAAGAAGGACGAAGAGGAGAAGAAGAAGAAGGAGAAGGAGGCCGAGGAGAAGAAGAAAAAGGAATGCCTGGAGCTGATG
CAGAAGCACTGCCCCAAGGCTTGCCTGCCGCCACCCT------------------------------ACTGCCCGCCGCC
ACCCCACTGCCCGCCGCAAACCTACAGCTGCTACGTCGACGACCACCCCGGCCCCTGCACCATCGTCTGAGCGAGAGGGG
AGATCATCGATCCAGCGCCACCGTACCATATATACAGCCGATCGTTGTTGCTGGTGCAAATTAAGCCACTCCTCCAGGCC
AGGCACACCAATTAATTCGTGCGTACGTCTTGTTCATCGTTCAGAAGATTCAGAGCTTGCATGCACATTA-TTTTCTTCT
CCTGTATCTTTTCCGGTTCCTGTGATCAAGAATTGTATGTCTCGACGGAGACCTTCTTTTACTACTCACAA-------CT
CGTCTACTTGCAATCTGCAAATGAGCTGTTTGGTTCATGACAATGCGACGACTTGGATATAAGATTGGTGGTGGGGTACT
TAGCTTCACCTAATAATGTGACAAATTGATTAGTCTACCCGTCGGCATTGCCAAATGGAACAGTTTATTGCAACAATTTG
TCCCTATTGACGCTGGAACTTTCATATGCCGTTGCCGATTGGTACTCTCCGGGAAACAAATAATTTCTGCAGATCACGCA
ATGATTCAGGTGCACTTTTACAATTCTCCAACTTACCTCTTGACCATTGAAAAAAAAACACTCTTGAGACTTA-------
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>SNPs
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSS-----------S-------S-----------------------------S------------------
---------------------------S-SSSSSSSS-------------------------------------------
-----------------------------S--------------------------S---------S-------------
--------------------------------------S-----------------------------------------
--------S-----------------------------------------------------------------------
--S-------------S------------------------------------SSSSSS---------------------
-------------------------------------------S------------------------------------
-----SSS------S--------S-S------------SSSS-----------------SS-------------------
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-------------S----------S-------------------------------------------------------
----------------------------------------------------------------S--------------S
-------------------S------------------------------------------------------------
----------------------------------------------------------------------S---------
-----------------------------------------------------------------------SSSSSSS--
---S-----------------------------------S----------------------------------------
--------------------------------S-----------------------------------------------
-----S--------------------------S-----------------------------------------------
-------------------------------------------------------S---------------------S--
-----------------S----S----------------S--------S-S-S-----------------SS--S-----
------------------------------S----------S-------S-S----------S------S----------
-----S------------S-----S--------------------S----S--------------SS-------------
-------S-------------------S--S--S---SS------S-S-S------------------------S---SS
S---------------------S-------S----S--------------------------------S-----------
------------------S--S---------SSS
>forward_274
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--------------TAAAAAGCGCATGTGAGGGC----------------------------------------------
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>reverse_1226
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-------------------------GTGATTCGCTCGTCCTCCTC-----------------------------------
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>forward_652
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------------------------------------------------------------------------GGGTGTAC
CGAAGCATTGCT--------------------------------------------------------------------
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>reverse_2514
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---------------------------------GTTGGCCCCAGATGTCCTTT---------------------------
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