>input_sequence_64889
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---ATGGCAGCAGTACTGCCACCGTGGCCTCACCCGGCGGCGGCGACGGAGACCCACGTCCGTTTCTGCGGGAAAGACGC
CATCACAGTCGAGCACAAGCCGAGCGGGCAGCCGTGCTCCGTGCGCCTCCACAGCGACCTGATCCTGTCACACGGACTGC
GCGGCGTCGGCGGCCGTTACTTCGGCGTGACCACCGACCGCGTCGCCAGGGCGCTCGACCACCGGGTCGGGGTCCCCGAC
GCCGCCGCCCTCCACAGCCTGGACGCCTGCAGCGACCTCATCCACAGCATGCTCGCCGAGGCGCCGGTGACCGCCGGGTA
CGACCTCGCCGCCGACAACTGGATGGATTCCTCCACGGACCGCACGCCCCTCGACATAGCCATCGCGATCGCCGAGTACG
TCCGCGAGGAGATCGACGCGATGGTCGACATCGACGACATGGACTT---------CGTCGCCCCGAGCCTCCACTTCGAC
GTCCACATGCCCGAGCTCCGGGTAACCCTGGTCTACAGCGAGCCCAGAGCGCTGCTCATCGCGTGCAAAGAGGCCGCCGC
CGCCGCCAAGACCGAGGATAC---------CGGGGCTCCGGTGACGGGACGAAAGCGCCGCCGTGAGTCCGGCGAGCCGT
GCGCCATCTGTATGGTGGACGAGGATGCCAGCTGGGACGAGGAGACCGTCGCGCTGCCGTGCTCCCACGCCTTCCACAGT
GGGTGCATCCTCAGGTGGTTCCACCGGGCGCCGACGTGCCCGACCTGCCGGTGTGACATCATGGAGTGCTTCAGCTTCGT
CAGATCATCGGCGCCGCCGGAGCAGTTCGCGGATGACGCGGCCGACGATGAGCTCGATCGCGTTATAGGCTTCTTAGCCC
ATGGTGAGCAGCTCGTCGGCCCCGCGGACACAGATGAGCAGCAGCTC------------------------------ATA
GATTCCGATTCGGAAGAGGAGCTGGAT---------------------ATATGA--------------------------
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>chr3A_1_TraesCS3A01G460600
ATATCCCTCCTTCAAATGTTAAACAGTGGCCATGCAATCAGTGGCCACTTTGTTCTTGGGGGAATTCCAGGACTTAATGA
CAATTTTTTGTCAAAGGGATATTTCAACATTATTCAGTTTAGTATATTTTTACACTCGTTCGTGTTGGGCTGGGACACTT
AATTTTT-------TTTTCCTGTATTTTCTTGTTCCTGCTGCCCAAAGAGGGGAGCCATGTAAACGGTAGCTCCTATCTG
TGACAGATTGGCGGCCGAACGCACACACACGTTACTTTTTTTTGTGGCAAAACGTCCGGTATGTGGTACCGTAGTGGATA
CTGTAGCAAACGGTAGTGGATAATTTTGTGAAAAAAAAGATAACCATTCTTGAATAAAGTATATATATTTTTTGAAATGT
CTAAAATATTTTGAAAAGTGCGAACATTTTTCTAATTGATAAACAAAATTTCTGAAAAGAGGAATATTCTTGGGAAAATT
GAATCAATTTTTGACCGCGAACATT--TTTCTTTATTTTTTTATTTTTTAAAAG-------GGAACATTTTATGAAACCA
TTTTTTCCTGAATTTGTGAATAAAATTTTAAAACGGGAACATTTTTTGAAATTCCAATTAAAA-TTGAAGAACGGCAACA
TTTTTTGAAATTCCAAGAAAGTTTGAAGATGCGAGCATTTTCTGACCAAT------------------------ATTTAT
AAAATAGTAACGTTTTGTAAATTTCTAACAACATTTAAAATAG-TTGAACATTTTTTGAAAAGAAAAATAAACACAGGGA
GGCCCACTGTAATTGGAGGCCC-GACTCATGTCCTCCACGCGACCCGACTCCGACTCCAATTCTTCTTTTTTTGAGGGTG
ACTCCGACTCCAATTCAGTCTGCCCAGCGCCGGCCCGTGCGTTCATAAACACACCCAGCCGCGTTCATAAACGTGCCTTG
ATTCCTTGCTACCTGTCCTGCTCCGCGCCTTCTTTCTTCTTCAGCCGTCCCTGTGCTCGGCATACACAGATTCGGCGGCT
GCCATGGCAGCAGTACTGCCACCGTGGCCTCACCCGGCGGCGGCGACGGAGACCCACGTCCGTTTCTGCGGGAAAGACGC
CATCACAGTCGAGCACAAGCCGAGCGGGCAGCCGTGCTCCGTGCGCCTCCACAGCGACCTGATCCTGTCACACGGACTGC
GCGGCGTCGGCGGCCGTTACTTCGGCGTGACCACCGACCGCGTCGCCAGGGCGCTCGACCACCGGGTCGGGGTCCCCGAC
GCCGCCGCCCTCCACAGCCTGGACGCCTGCAGCGACCTCATCCACAGCATGCTCGCCGAGGCGCCGGTGACCGCCGGGTA
CGACCTCGCCGCCGACAACTGGATGGATTCCTCCACGGACCGCACGCCCCTCGACATAGCCATCGCGATCGCCGAGTACG
TCCGCGAGGAGATCGACGCGATGGTCGACATCGACGACATGGACTT---------CGTCGCCCCGAGCCTCCACTTCGAC
GTCCACATGCCCGAGCTCCGGGTAACCCTGGTCTACAGCGAGCCCAGAGCGCTGCTCATCGCGTGCAAAGAGGCCGCCGC
CGCCGCCAAGACCGAGGATAC---------CGGGGCTCCGGTGACGGGACGAAAGCGCCGCCGTGAGTCCGGCGAGCCGT
GCGCCATCTGTATGGTGGACGAGGATGCCAGCTGGGACGAGGAGACCGTCGCGCTGCCGTGCTCCCACGCCTTCCACAGT
GGGTGCATCCTCAGGTGGTTCCACCGGGCGCCGACGTGCCCGACCTGCCGGTGTGACATCATGGAGTGCTTCAGCTTCGT
CAGATCATCGGCGCCGCCGGAGCAGTTCGCGGATGACGCGGCCGACGATGAGCTCGATCGCGTTATAGGCTTCTTAGCCC
ATGGTGAGCAGCTCGTCGGCCCCGCGGACACAGATGAGCAGCAGCTC------------------------------ATA
GATTCCGATTCGGAAGAGGAGCTGGAT---------------------ATATGAGC-------------------AGAAC
AGTCCGCACATCATCCACTGAATCCATCATGAGATCGTTACCCGATTTTTTCCC--AAACATTTGTTT---------TGC
AGTGGCAAATTGTTTCTTGTCAAGCATGC-AAATATACAAAAAAAATTTGCGGGGAAGCATGCAAATATACATGTAGTAT
ATTGTCACACAAACACATGTCAATTTCATACCAGCTTTGCATACTAGCTATGACCCTTTTGCCATGGAGATGGATATACA
TGACGATTTTAGTATTATCTGCGTGGCAGTTTACTAACTACTATGGCA--------------------------------
----------------------TTTTTAAAGAAAATTGTGATGGC--AAAAATATGGTTGTCAATTGCAATTCCTTTTTT
TTACCTACACTGCACA------------------------------TGATTCCACTTGTTTTCTAGAGAGATCCA-----
----------------------------AACAACAAATTGGCGCACACCCAAGACCATCTAACACCAATTCCATGACAAT
TAGGGCATCTCTAATGCGAACCTTCAAACCTCCCTCAAGTGTTTGGGCCGAGCTGTCTGGACACCGCAAGCCATCCAACA
GTGACCCACATTTGTCTGTTGCCAATCCAGGTGTGTCCGTTTTCCCGCAAACAAAAAAACAAAAGCATGGGGATTTGCGG
G-GTACGGACACCCTCCACGTATGACCCCGACACCCATGGTCCACCCAAAACTAAGGCGGAGCTCACGCA-TTGGAGTTG
GCCGCACTGTTTCGGTACCAACCCCCCCTCCCCCCCTCCCCTCTTTCTCAACCCTCTCCGATACCATCCCGCCGCTCTTC
CACCCTAATCCCCGCACTTTTTTGCCGCCGCCGCCGCCGCCGCATTGAGCCATACGAAATGCTACCCGAGAGTGCAGAAG
TGGAGGATCCGACAAAGGCGGTCGCTCAAACGATAAACTCGGCAACATGGAAAGCACGCCACCTCAAACATAAGGCAAAG
GAGGCGCCGCTCAAAAAGAAGGGCGGGCGGACGGGGTTGGGCATAGTATAGGGGGGCTGGGGTGGCCCGCCTAGAGGTTT
AACATC
>chr3D_56
-------------------------------------------------------TTGGAGGAATTCCAGGACTTAATGA
CATTTTTTGTC--AAAGAATAGTTCAACATTATT-AGTTTAGTATATTTTTACACTCGTTCATTTTGGGCTGGGACACTT
AAATTTTTACTTGCTTTTCCTGTATTTTCTTGTTCCTGCTGCCC-----------------------------CTATGTG
CGGCAGATTGGCGGCCAAACGCACACGCGGTGCA---TTTTTTTTGTCAAAGCGGCCTGTGTGT-GTACTGTAGTGGATA
CTGTAGCGAATGGTAGTGGATAATTTTTTTT-AAAAAAGAGAACCTATCTTTAATAAAGTATATTTTC----TGAAATTC
CTAAAATATTTTGAAAAGTGTGAACGTTTTCTGAATTGATAAACAAAAATTCTGAAAATAGGAACATTTTTGGCAAAATT
GAATCAAAATTTTGAAACCGTGAACACTTTCTTTATTTTGTGAACAAAATTTTAAAAAATAGGAAAATTTTATGAAACTA
TTTTTTCCTGAATTTGTGAATAAAATTTAAAAACGGGAACATTTTTTGAAACTGCAATCAAATTTTGAAGAACGGCAACA
TTTTTTGAAATTCCAAGCAAGTTTGAAGGTGTGAACATATTCTGAAGGCAAGTTTTTTATAAATTTATTCGCAAATTTAC
AAAATAGTAACTTTTTAAAAATTTCTAACAATATTTTAAATAGTTTGAACATTTTTTGAAAAGAAAAATAAACACAGGGA
GGCCCACTGTAATTGGAGGCCCTGACTAATGTCCTCCACGCGACCCGACTCCGACTCCAATTC-----------------
----------------AGTATGCCCAGT----GCCCGTGCGTTCATAAACATAGCCAGCCGCACTGGT--ACGTGCCTCG
ATTCCTCTGCCTT----------------TTCTTTCTTCTTCAGCCGTCCCTGTGCTCCGCACACACAGATTCGGCGGCT
GCCATGGCCGCAGTACTGCCGCCGTGGCCGCACCCCGCGGCGGCGACGGAGACCCACGTCCGTTTCTGCGGGAAAGACAC
CATCACAGTCGAGCCCAAGCCGAGCGACCAGCCGTGCACCGTGCGCCTCCGCAGCGACCTGGTCCTGTCTCACGGGCTGC
GCGGCGTCGGCGGCCGTTACTTCGGCGTGACCACCGACCGCGTCGCCAGGGCGCTCGACCACCGGGTCGGTGTCCGCGAC
GCCGCCGTCCTCCGCAGCGTGGAGGCCTGCAGCGACCTCATCCACAGTATGCTCGCCGAGGCGCCGGTGACCGCCGAGTA
CGACCTCGCCGCCGGCAACTGGATGGATTCCTCCACGGACTGCACGCCCCTCGACATAGCCATCGCGATCGTCACGTACG
TCTGCGAGGAGATCGACGCGATGGTCGACATCGACGACATGGACTT---------CGTCGCCCCGAGCCTCCACTTCGAC
GTCCACATGCCCCAGCTCCGGGTAACCTTGGTCTACAGCGAGCCCAAGGCGCTGCTCCTCGCGTGCAAAGAGGCCGCCGC
CGCCGCCGCGAAG------AC---------CGGGGCTCCGGCGACAGGCCGGAAGCGCCGCCGTGAGTCCGGCAAGGCGT
GCGCCATCTGTATGGTGGACGAGGATGCCAGCTGGGACGAGGAGACCGTCGCGCTGCCGTGCTCCCATGCCTTCCACAGT
GGGTGCATCCTGACGTGGTTCCACCGGGCGCCGACGTGCCCGACCTGCCGCCTTGACATCATGGAGTGCTTCAGCTTCGT
CAGATCATCGGCGCCGCCGGAGCAGTTCACGGATGACGTGGCCGAAGATGAGCTCGATCGCGTTATAGGCTTCTTAGCCC
ATGGTGAGCGGCTCGTCGGCCCCGCGGACACAGATGAGCAGCAGCCCGTAGATTCCGATCCCGAAGAGGATGAGTTTATA
GATTCCGATCCCGAAGAGGATGAGTTTATAGATTCCGATCCCGAAGAGGATGAGCAGCAGCTGGTGGATACGGGAAGAAT
AGTCGGCACATCATGCACTGAATCCACCATGAAATCGTCTCCCAA---TTTTTCCTAAACAATTGTTTTACTAAATCTGC
AATGGCAAATTGTTTCTTATCAACCTGGC-AAATATC------------------------------ATTCATGCAGTAT
ATTGTCACACAGTCACATGTCAATTTCATACCAGCTTTGCATACTA----CGACCCTTTTGCCCTAGA------TATACA
TGACAATTTTAGTATTATTTGCGTGGTGGTTTACTAACTGCTA-------------------------------------
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>chr3B_951
TTCTTT--------------------------------------------------------------------------
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--------------------------------------CTTCAGCTGGCCCTTTGCTCTGCATACACAGATTCGGCGGCA
TCCATGGCAGCGGTACTGCCGCCGTGGCCGCACCCGGCGGCGGCGACGGAGACCCACGTCCGTTTCTGCGGGAAAGACAG
CATCTCAGTCGAGCCCAAGCCGAGCGGCCAGCCGTGCTCCGTGCGCCTCCGCAGCGACCTGATCCTGTCCCACGAGCTGC
GCGGCGTCGGCGGCCGTTACTTCGGCGTGGCCACCGACCGCGTCGCCAGGGCGCTCGACCACCGGGTACGGGTCCGCGAC
TCCGCCGTCCTCCGCAGCCTGGACGCCTGCAGCGAACTCATCCACAGTATGCTCGCCGAGGCGCCGGCGACCGCCGAGTA
CGACCTCGCCGCCGACAACTGGATGGATTCCTCCACCGACCGCACGCCCCTCGACATAGTCATCGCCATCGTCGAGTACG
TCCGCGAGGAGATCGAGTACGTCCGCGAGGAGTACGCCCGCGAGAAGATCGAGTACGTTGCCCCGAGCCTCCACTTCGAC
GTCCACATGCCCGAGCTCCGGGTAACCCTGGTCTACAGCGAGCCCAAGGCGCCCCTCCTCGCGTGCAAAGAGGCCGCCGC
CGCCGCCGCGAAG------ACCGAGGCTGTCGGTGCTCCGGTGACGGGCCGAAAGCGCCGCCGTGAGTCCGGCGAGCCGT
GCGCCATCTGCATGGTGGACGAGGATGCCAGCTGGGACGAGGAGACCGTCGCGCTGCCGTGCTCCCATGCCTTCCACACT
GGGTGCATCCTGACGTGGTTCCACCGGGCGCCGACGTGCCCGACGTGCCGGTGTGACATCATGGAGTGCTTCAGCTTCGT
CAGATCGTCGGCGCCGCCGGAGCAGTTCACGGATGACGTGGCCGAAGAGGAGCTCGATCGCGTCATAGGCTTCTTAGCCC
ATGGCGAGCAGCTCGTCGGCCCCGCGGACACAGATGAGCAGCAGCTC------------------------------ATA
GATTCCGATCCCGAAGAGGAAGAGTTTATAGATATATAGCTGGATTGGATATGAGC-------------------AGAAC
GGTCCGCACATCATGTACTGAATCCACCATGTGATCGATACCGATTTTTTTCTTCTAAACATTTGTTTTACTAAATC---
-------AATTGTTTCTTATCAAACCTGGGAAATATC------------------------------ATGCATGTAGTAT
ACTGTTACACAATCACATAGCAATTTCATACCAGCTTTACATACTA----TGATCATTTTGCCCTGG-------TATACA
TGGCAATTTTGGTATTATTCGCGTGGCAGTTTACTACACTAGTTCTTGGCAAATATTTAGCATCCAACATTGAAAATTGT
TACTAAATTAGCACTTACGCATTTTTAAACAAAAATTGTGATGGCCAAAAAATATGGTTGTCAATTGCAATTCCGTTCTT
TTTCACCTGGACTGCACGTGTGCTAGTGTGAGATTGCGAGGCATGGTGATTTCACTGGTTTTCTAGAGAGATCCAGCAAC
CACATCATGTTCAAGAGACTCTTGTCAGAACAACAAATTCACACACACCCTAGA-CATCTAATACCAATTCCATGGCAAT
TAGGGCATCTCCAACACAGACCTTCAAACCC----CAAGTGTTCGGACCGAGCTGTCCGGAGGCCGCAAGCCATTTAATG
GTGTCCCACTTTTGTCCGTGGACCAGTCCGG-GTATCCGTTTTCCCGCAAACCAAAAAG-AAAACCAGGGGGCTTTGCAG
GAGTACAGACACCCTCCACGTACGACCCTGACATCCATGGTCCACCCAAACCAGAGGCGGAGCTCGTGCGTTTGGAGTTG
GCCGCACTGTTTCGGTACC-------------------CCCCCCTTCTCAACCCTCTCCGGTACCATCCCACCGCTCTCG
-ACCCTAATCCCCGCCCTTTTTCACCGTCGTCGCCGCATTGACTTGTATGAAAAGTTATG-------GAGACTGCAGAGG
TGGAGGATCCGGCAAATGCGGCTGCCTGAAAGATAAACTCGGCGGCACGACAAGCACACCGCCTCAAACATAAGGCAAAG
GAGGCTCCACTCAAAAAGAAGGGTGGCAGCGGAAGGGGT-----------------------------------------
------
>SNPs
S-S-SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS----S--------------------
--S-----SSSSS--S-S---S------------S--------------------------S-S----------------
--S-----------------------------------------SSSSSSSSSSSSSSSSSSSSSSSSSSSSS----S--
S-S-------------S---------S-SSSSS-SSS------S--S----S--S--S--S---S----S----------
-------S--S----------------S-SSS--------S----SS----S------------S-SSSSSS------SS
--------------------S----S----SSS---------------S---------S-----S---S----S------
-------SS---SSSSS-SSSS-SS--------------S-S-SSSSSSSSSSS-----------S------------S-
----------------------------S----------------------S-S----S---S-----------------
-----------------S----------S--S--S---S------SSSSS-----------------------------S
-----------S----SS-------------S----S-------------------------------------------
---------------------------S-----------------------------------SSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSS---S-------SSSSS-------------------S-S--------SS-SS-SS--------S-
------SSSSSSSSSSSSSSSSSSSSSSS-----------------------------S---------------------
--------------------S--------S------------------------------------------------S-
--------------S------------S----------------------S------------------S-----S----
---------------------------------------------------------------------------S----
-------S-----S---------------------------------S----------------------------S---
-----------------------------------------------------------------------S--------
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----------------------------------------------SS---------S----------------------
-------SS--SSSSSSSS-----------------------------S-------------------------------
-------------------------------------------------------------------S------------
-----------S-S------------------------------------------------------------------
----------------------------S---------S------S----------------------------------
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---------S-S--------SSS-SS------------------------------------------------------
--------------S-----------S----------------S--------S---------------------------
-S----------------S----S-S----------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS--S----------
------------S---------------------------------SSSS-------------S----SSSSSS------
----S-------------S--------------------S----SSSS--------------------------------
--------------------------S--SS-------------------------------------------S--S--
--S-SSSSSSSSSS-------------------------------------S----S-----------------------
---------------------------------------SS-S-------S---S-------S------------S----
-----------S--SS-SS-----------SSSSS--------S--S----------S---SS-----------SS--SS
---S-----S------S--S-S-S-SS-S--S--S-----------------S-----SS----S--S----S-----S-
------S---------------S-----S----S----------------S-SS-----------SS--S----------
-------------------SSSSSSSSSSSSSSSSSSS---S-S----------------S---------S-------SS
S--------------S------SS---S--S------SSSSS-S-SS-SSS-S-SSS-SSSSSSSSS----S------S-
-----------S----S----SS--SSS--S------------SS--S-SS------S--S-------------------
-----S--S--------------S--SS-SSSSS--SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSS
>forward_205
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-------------------------TTTCTTGTTCCTGCTGCCCA-----------------------------------
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>reverse_2204
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-------------------------------------------AAATTTGCGGGGAAGCATGC-----------------
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