>input_sequence_67003
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-----------------------------------------------------------------------------ATG
GCCAGTGGTATCCCCACAATAACCTCGAGCTCCCTGCTCCTCTTCTTCCTCCTCTCTTGCTTGCTCATCGGCCATGCTCT
CTGCAACCAAGGCCACCATGGCAGCATCTCAGGTTTCACCTCTTCACTACAAATACTGAGTGTTCTTTGTTTGTTCTTGC
ATGAGAATGGCTTGTTTTCTTTTTCTTTCTTTAGTGTGCATATGTTCACTGTGTATTCACTAGTTTCACTTCAATATGCT
GTACAGGTGCAGACTATGGAGAACAATATGCTCACCAGGGATTACCTGAAGAACATATAGACCTGCAAGAGAACATCAAG
GTACATATGCCATCTAGTTAGTACTAAGTGCCATTCTTATAGGTACTATATTTTCTAATGTTTTCAGCACATGATAAATT
ATGCTTGAATAGAGATTCTGTAAACTTCAACTTGCTTGAAATACTATATACCTGTCCATGGAGTTTTTGGTAAGCGGACT
CATAGGAAGAGGATACAGTAGCCAACTTGCC---TCCTTACTCCTACAGTTAGTACGAGAAATTCTAAGACCAAGAGCAA
AAC-AGCATGGGTGCAGCCGTGCAGGATATGCAAGTTAATTTGGAAAATGGGGCCCATGACATAGCCATCTGAAAGCAAC
AATAACTAACATGACGTTCACATGCTTCACAGCAGGGTCTAAACAAGGAGAAACCGCCCAAGTATGCAAGGAGAATGCTG
ATTGGTTCAATTGCTCCCATATGCACGTACAACGAATGCAGGGGGTGTCGATCCAAGTGTACCGCTGAGCAAGTTCCGGT
GGATGCAAATGACCCCATGAATAGTGCCTATCATTACAAGTGTGTCTGCCACAGGTGA----------------------
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>chr3D_1_TraesCS3D01G415500
CAGAATCCAGTGGCAAGCCCATGCCGTCGTGCTCAT--------GGAGAGCGAGAGAAGAAAACAAGAGCTAGGCTGGGA
GAAACGCAGAAATCCAAGCACCCCCGCCACGCTGCTCTCTCCGAAATGCAGAATCCAAGCATCTTCACCCGAGCTGCTTT
TCCAGTTCCCACACCCTCCTCTCAGTCCTGTGGC--ATACAGACACACACCTCTGCATGTTCAGAGATGATACGCCATAA
AT-----CTGTGCTTCCCCCTGGCTTTCACCGTCATCACTAC-CCCAAGCATCCTAGGTAGTTAGTTCCTTGAAGCATG-
---TCCTTTGACTGAACATAAGTTTCCACTTCTCCCTCAGGGTTTTCCTTGAAGCATGTTCTTTCGCTGATTATTAGGTT
TACTACTATTCCCACATAGATTTTGCGCAATGTGTCCGCCGTTTCGATGTTGCATATGATTGGCGCAAATAATTGACCCA
TCTTCCCTTTCCCTCCATAACCTCTGGCCCTGTAGAGCAGAAGGAACAAAAAGAGGTGAGCAAAGCGGCTAATGAAGCAT
ATTATTGGACTCCTTAAATTAAAAACTGAG----ATACAGAAAATAAGATAGGTGCAGAGAAGGCACATGTGCGGTAAGA
AGGGACAAAGGTGATGCGGTGCAAAAACAATGCAAGGACGGTCCCCCGTTGCTAAGTTTCAGAGGCCTCTGTTATCCCGT
GTGTGCGTGCATATGAAAGAGAGGCAGAGCCACCTGTTGGTGGTCACCTCAGTCCCCACTGCGCCCCTCTCTACAGTCTA
GACCATCGTCTGCATGGTATGGCACAGGGATATGCA--------TACATATGCTAGACAACAGCGGAGCCACAAGGCAAC
ACACACATACGCACAAGAGCTCTTGCAGTATTGCACCCGTCTGCCATCTATATAGCCTCTAGCATTTGCTCCCTTAAGCT
GTTTCTCTAATTCCAAGCATACTA-----CCATCCTCCCGTTCCCTATCCATCTTCTCATTTTGGGGCAGGGGGGTTATG
GCCAGTGGTATCCCCACAATAACCTCGAGCTCCCTGCTCCTCTTCTTCCTCCTCTCTTGCTTGCTCATCGGCCATGCTCT
CTGCAACCAAGGCCACCATGGCAGCATCTCAGGTTTCACCTCTTCACTACAAATACTGAGTGTTCTTTGTTTGTTCTTGC
ATGAGAATGGCTTGTTTTCTTTTTCTTTCTTTAGTGTGCATATGTTCACTGTGTATTCACTAGTTTCACTTCAATATGCT
GTACAGGTGCAGACTATGGAGAACAATATGCTCACCAGGGATTACCTGAAGAACATATAGACCTGCAAGAGAACATCAAG
GTACATATGCCATCTAGTTAGTACTAAGTGCCATTCTTATAGGTACTATATTTTCTAATGTTTTCAGCACATGATAAATT
ATGCTTGAATAGAGATTCTGTAAACTTCAACTTGCTTGAAATACTATATACCTGTCCATGGAGTTTTTGGTAAGCGGACT
CATAGGAAGAGGATACAGTAGCCAACTTGCC---TCCTTACTCCTACAGTTAGTACGAGAAATTCTAAGACCAAGAGCAA
AAC-AGCATGGGTGCAGCCGTGCAGGATATGCAAGTTAATTTGGAAAATGGGGCCCATGACATAGCCATCTGAAAGCAAC
AATAACTAACATGACGTTCACATGCTTCACAGCAGGGTCTAAACAAGGAGAAACCGCCCAAGTATGCAAGGAGAATGCTG
ATTGGTTCAATTGCTCCCATATGCACGTACAACGAATGCAGGGGGTGTCGATCCAAGTGTACCGCTGAGCAAGTTCCGGT
GGATGCAAATGACCCCATGAATAGTGCCTATCATTACAAGTGTGTCTGCCACAGGTGATCATTGATGGTTAGTAGGAGCT
TCTATGATATGATATGTCTAGTAGAGAGTAGTAGTTTTCCTTCAGTCTCCTCTTCTTTTCCTTCTATTCTCTTTCTCTGT
TAAAAAGGCTTCTTCTTTTTT-CCTTTTTCTTTTTTACTAGAGGTTAACTAGTAGCAGACTGGAGGGGCATTTTGTACTG
TAAGATGTCTAGTTCAGCTTGTGAACTAGTAATTTTGAGAGTGAATGGTCTGAAATTTTGATATCGGAAGACCAGCTTGG
CTGTGCAGATAACCAGTTTCTTTGTTAATACTCCCTCCGTCCCAAAATAAGTGTCGCTGGTTTAGTACAAAGTTAGTAAA
GCTTTGTACTAAATCAGCGACACTTACTTTGAGACGGAGGGAGTATATTGCAACTAGAAATCAAATCTATAAGCAGACCT
CGATGTGGTCTTCTGCTTGTATAGGCTTAGAACTTCAGGCTGGATCTTCTGCACTGTTGGTCTCCAACTGTGCAGTGTAT
AAATGCTGTAAACGTTCGTATGTTCCACCAGAAGTTGACAGTATCTTCTCTA-------CCCCGAGCATCTTCAGCTCTC
GTGGG-TTTTGTGCCATCCCTCTTTCCATGTAACAACGTATACTGCAACAACCACCGGTGCTGTACAAGGGAGCAGTAGA
TTCATATTGACAAATCAGAGAAGAAAGAAGATGGTGACTTCTGTGCAGACTGCATTTCCTCAGCAGAGCAGGCTTCAGCT
GTTGAATTTAACCAACCAGGTCTAGTTTCATGTATGTACCACA-TTTTTACGCAAAAAGCTGTAGCATAGGTAATAAACA
ATCCAGTACCAAACAGAGCATTTATTTTGCAAGCAGAGAGGCTGCAGGGTGCCTTGTATGCATTCAACAAAAGAACAGTT
GAAGATTTGTCTCAATAGGAAATATTTATTACCAATAGCTCTTTTACTGGAG--GGGTAAGGATGCTTATATACAACGGG
ACACTCTGGAGTAACTCATGTATATTTGAA
>chr3A_1
CAGAATCCAGTGGCAAGCCCACGCCGCCGTGCTGA--------AGGAGAGCGAGAGAAGAAAACAAGAGCTAGGCTGGGA
GAAACGCAGAAATCCAAGCACCTCCGCCACGCTGCTCTCTCCGAAATGCAGAATCCAAGCATCTTCACCCGAGCTGCTTT
TCCAGTTCCCACACCCTCCTCTCGGTCCTCTGGC--ATACAGACATACACCTCTGCATGTTCAGAGATGATACGCCATAA
AT-----CTGTGCTTCCCCTTGGCTTTCACCGTCATCACTAC-CCCAGGCATCCTAGGTAGTTAGTTCCTTGAAGCATG-
---TCCTTTAACTGAACATAAGTTTCCTCTTCTCCCTCAGGGTTTTCCTTGAAGCATGTTCTTTCGCTGATTATTAGGTT
TACTACTATTCCCACATAGATTTTGCGCACTGTGTCCGCCGTTTCGATGTTGCATATGATTGGCGCAAATAATTGGCCCA
TCTTCCCTT-CCCTCCATGGC--CTGCCTCTGTAGAACAGAAGGAACAAAAAGAGGTGAGCAGAACGACTAATGAAGCAC
ATTATTTGACTACTTAAGTTCAAAACTGGGATAAATAAAGAAAATAAGATGCGTGCAGAGAAGGCACATGTGTGGCAAGA
AGGGACAAAGGTGATGCGGTGCAAAAACAATGCAAGGACGGTCCCCCGTTGCTAAGTTTCAGAGGCCTCTGTTATCCCGT
GTGTGCGTGCATATGAGGGAGAGCG-GAGCCACCTGTTGGTGGTCACCTCAGTCCCCACCCCGCCCCGCCCCTC--TCTA
CACCATTGTCTGCATGGTATGGCACAAGGATACGCACACATAATTACATATGCTAGGCAACAGCGGAGCCACAAGGCAAC
GCACGCATACGCACAAGAGCTC--------TTGCACCCGTCTGCCATCTATATAGCCTCTAGCACTTGCGACCTTAAGCA
GTTTCTGTAATTACAAGCACACCTCCATTCCATCCTCCCGTTCCCTATCCATCTCTCCATTTTGGAGAAGGCGGGTTATG
GCCGGTGGTAGCCCCACAACTACCTCGAGCTCCCTGCTCCTCTTCTTCCTCCTCTCTTGCTTGCTCATCGGCCAGGCTCT
CTGCAACCAAGGCCACCATGGTAGCATCTCAGGTTTCACTTCTTCACTGCAAATACTTTGTGTTCTTCGTTTGTTCTTGC
ATTAGAATGGCTTGTTTTCTTTTTCTTTCTTTAGTGTGCATATGTTCACCATGTATTCACTAGTTTCACTTCAATCTACT
GTACGGGTGCAGACTATGGAGAACAATATGCTCACCAGGGATTACCTGAAGAACATATGGACTTGCAAGAGAACATCAAG
GTACATATGCCATCTAGTTAGTACTAAGCGCCGTTCTTATAGGTACTATA----------------GCACATGATAAATT
ATGCTTGAATAAAGATTCTGTAAACTTCAACTTGCTTGAAATACTATATACCTGCCCATGGAGTTTTTGGTAAGCGGACT
GATAGGAAGAGGATACAGTAGCCAACTTGCC---TCCTTACTCCTACAGTTAGTACGAGAAGTTCTTAGAACAAGAGCAA
AAAGAGCATGGGTGCAGCCGTGCAGGATATGCAAGTTAATTTGGAAAATGGGGCCCATGACATAGCCATCTGAAAGCAAC
AATAACTAACATGATGTTCACATGCTTCACAGCAGGGTCTAAACAAGGAGAAGCCGCCCAAGTATGCAAGGAGAATGCTG
ATTGGTTCAATTGCTCCCATATGCACGTACAACGAATGCAGGGGTTGTCGATCCAAGTGTACCGCTGAGCAAGTCCCGGT
GGATGCAAATGACCCCATGAATAGTGCCTATCATTACAAGTGTGTCTGCCACAGGTGATCATTGATGGTTAGTAGGAGCT
TCTATGATATGATATGTCTAGTAGAGAGTAGTGGTTTTCCTTCAGTCTCCTCTTCTTTTCCTTCTATTCTCTTTCTCTGT
TAAAAAGGCTTCTTCTTTTTT-CCTTTTTCTTTTTTACTAGAGGTTAACTAGTAGCAGACTGGAGGGGCATTTTGTACTG
TAAGATGTCTAGTTCAGCTTGTGAACTAGTAATTTTGAGAGTGAATGGTCTGAAATTTTGATATCGGAAGACCAGCTTGG
CTGTGCAGATAACCAGTTTCTTTGTTAATACTCCCTCCGTCCCAAAATAAGTGTCGCTGGTTTAGTACAAAGTTAGCACA
GCTTTGTACTAAATCAGCGACACTTATTTTGAGACGGAGGGAGTATATTGCAACTAGAAATCAAATCTATAAGCAGACCT
CGATGTGGTCTTCTGCTTGAATAGGCTTAGAACTTCAGACTGGATCTTCTACAC----GGTCTCCAACTGTGCAGTGTAT
AAATGCTGTAAACGTTCGTATGTTCCACCAGAAGTTGACAGTATCTTCTCTA-------CCCTGGGCATCTTCAGCTCTC
GTGGG-TTTTGTGCCATCCCTCTTTCCATGTAACAA----------AACAACCACCTGTACTGTACAAGGGAGCAGTAGA
TTCATATTGACAAATGAGAAAAGAAAGAAGATGATGACTTCTGTGCAGACTGCATTTCTTCAGCAGAGCAGGCTTCATGT
GTTGAATTTAACCAACCAGGTCTAGTTTCATGTATGTACCACA-TTTTACGC--AAAAGCTGTAGCATAGGTAATAAACA
ACCCAGTACCAAACAGAGCATTTATTTTGCAAGCAGAGAGGCTGCAGGGTGCCTTGTATGCATTCAACAAAAGAACAGTT
GAAGATTTGTCTCAATAGTGAATATTTATTACCAATAGCTCTTTTACTGGAGAGGGGTCAGGATGCCTCTATACTACGGG
ACACTCCGGGGTAACTCATGTATATTT---
>chr3B_4
---AATCGAGAGGCAAGCCCACGCCGTCGTGCTCAAGGAGGAGAGGAGAGCGAGAGAAGAAAACAAGAACTAGGCTGGGA
GAAACGCAGAAATCCAAGCACCCCCGCCACGCTGCTCTCTCCGGAATGCAGAATCCAAGCATCTTCACCCCGACTGCTTT
TCCAGTTCCCACAC-----------TCCTCTGGCATATACAAACATACACCTCTGCATGTTCAGAGATGATACGCCATGC
CTGTGTGCTCTGCTTCCTCTTGGCCTTCACCGCCATTAACCATCCCAAGCATCCTAGGTAGGTAGTTCCTTGAAGCATGC
ACGTCCTTTAACTGAACATAGGTTTCCTCTTCTCCCTCAGGGTTTTCCTTGAAGCATGTTCTTTCGCTGATTATTAGGTT
TACTACTATTCCCACATAGATTTTGCGCACTGTGTCCGCCGTTTCGATGTTGCATATGATTGGCGCAAATAATTGACCCA
TCTCCCCTT-CCCTCCATAACCTCTGGCTCTGTAGAGCAGAAGGAACAAAAAGAGGTGAGCAAAGCGGCTAATGAAGCAT
ATTATTGGACTCCTTAAGTTCAAAACTGAGATAAATAAAGAAAATAAGATGGGTGCAGAGAAGGCACATGTGCGGCAAGA
AGGGACAAAGGTGGTGCGGTGCAAAAACAATGCAAGGACGGTCCCCCGTTGCTAAGTTTCAGAGGCCTCTGTTATCCCGT
GTGTGCGTGCATACGAGAGAGAGCG-GAGCCACCTGTTGGTGGTCACCTCAGTCCCCACTGCGCCCCTCTCTACAGTCTA
CACCATCGTCTGCATGGTATGGCACAGGGATATGCA--------TACATATGCTAGGCAACAGCAGAGCCACAAGGCAAC
ACACACATACGCACAAGAGCTCTTGCAGTATTGCACCCGTCTGCCATCTATATAGCCTCTAGCATTTGCTCCCTTAAGCT
GTTTCTCTAATTCCAAGCATACTA-----CCATCCTCCCGTTCCCTATCCATCTTCTCATTTTGGAGAAGGGGGGTTATG
GCCAGTGGCAGCCCCACAACTACCTCCAGCTCCCTGCTCCTCTTCTTCCTCCTCTCTTGCTTGCTCATCGGCCATGCTCT
CTGCAACCAAGGCCACCATGGCAGCATCTCAGGTTTCACCTCTGCACTACAAATACTGAGTGCTCTTTCTCTGTTCTTGC
ATGAGATTGGCTTGTTTTCTTTTTCTTTCTTTAGTGTGCATATGTTCACTATGTATTCACTAGTTTCACTTCAATCTACT
GTCCAGGTGCAGACTATGGAGAACAATATGCTCACCAGGGATTACCTGAAGAACATACGGACTTGCAAGAGAACATCAAG
GTACATATGCCATCTAGTCAGTACTAAGTGCCGTTCTTATAGGTACTATATTTTCTAGTGTTTTCAGCACATGATAAATA
ATGCCTGAATAAAGATTCTGTAAACTTCAACTTGCTTGAAATACTACATACCTGTCTATGGAGTTTTTGGTAAGCAGACT
GATAGAAAGAGGAAACAGTAGCCACTTGCCTCCTTCCTTGCTCCTACAGTTAGTACGAGAAGCTCTAAGAACAAGAGCAA
AAC-AGCATGGGTGCG--------GGATATGCAAGTTAATTCGGAAAATGGGGCCCATGACATGGCCATCTGAAAGCAAC
AATAACTAACATGATGTTCACATGCTTCACAGCAGGGTCTAAACAAGGAGAAACCGCCCAAGTATGCAAGGAGAATGCTG
ATTGGTTCAATTGCTCCCATATGCACGTACAACGAATGCAGGGGGTGTCGATCCAAGTGTACTGCTGAGCAAGTTCCGGT
GGATGCAAATGACCCCATGAATAGTGCCTATCATTACAAGTGTGTCTGCCACAGGTGATCATTGATGGTTAGTAGGAGCT
TCTATGATATGATATGTCTAGTGGAGAGTAGTAGTTTTCCTTCAGTCTCCCCTTCTTTTCCTTCTATTCTCTTTCTCTGT
TAAAAAGGCTTCTTCTTTTTTTCCTTTTTCTTTTTTACTAGAGGTTAACTAGTAGCAGACTGGAGGGGCATTTTGTACTG
TAAGATGTCTAGTTCAGCTTGTGAACTAGTAATTTTGAGAGTGAATGGTCTGAAATTTTGATATCGGAAAACCAGCTTGG
CTGTGCAGATAACCAGTTTCTTCGTTAATGCTCCCTCCGTCCCAAAATAAGTGTTGCTGGTTTAGTACAAAGTTAGTACA
GCTTTGTACTAAATCAGCGACACTTATTTCAAGACGGAGGGAGTATATTGCAACTAGAAATCAAATCTATAAGCAGACCC
CGATGTGTTCTTCTGCTTGAATAGGCTTAGAACTTCAGACTTGATCTTCTGGACTGTTGGTCTCCAACTGTGCAGTGTAT
AAATGCTGTAAACGTTCGTATGTTCCACCAGAAGTTGACAGTATCTTCTCTAGTCTCTACCCTGGGCATCTTCAGCTCTC
GTGGGATTTTGTGCCATCCCTCTTTCCATGTAACAACGTC----------ACCACCTGTACTGTACAAGGGAGCAGTAGA
TTCATATTGACAAATCAGAGAAGAAAGAAGATGGTGACTTCTGTGCAGACTGCATTTCCTCAGCAGAGCAGGCTTCATCT
GTTGAATTTAACCAACCAGGTCTAGTTTCATGTATGTACCACATTTTTACGC--AAAAGCTATAGCATAGGTAATAAACA
ATCCAGTACCAAACAGAGCATTTATTTTGCAAGCAGAGAGGCCGCAGGGTGCCTTGTATGCATTCAACAAAAGAACAGTT
GAAGATTTGTCCCAATAGGAAATATTTATTACCAATAGCTCTTTACTG---GAGGGGTAAGGATGCTTATATACAACGGG
ACACTCTGGAGTAACTCATGTATATTTGAA
>SNPs
---------------------S-------------S--------------------------------------------
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-----------------------S-----S---------------S----------------------------------
-------------------S------------------------------------------------------------
---------S-----------------S----------------------------------------------------
-----------------------------S--------------------------------------------------
---------S------------------S---------------------------------------------------
-----------------S--S----------------S------------S------------------------S----
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----------------S------SSS------------------------------------------------------
S-------------------------------------------------------S-----------------------
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-----------------------------------------------------------------S-S------------
----------S--------SS-----------------------------------------------------------
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--------------------------------------------------S------------------------S-S--
----------------------------------------------------------S---S-----------------
--------------------------------S------------------------S----------------------
-----------S--------------------------------------------------------------------
S------------------------------------------------------------S--------S---------
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--------------S-----------------------------------------------------------------
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------------------------------------------------------------------------------S-
--------------------------S-----------------------------------------------------
-------------------S------------------S-----------------------------------------
--------------------------------------------------------------S-S---------------
---------------------------------------SSSSSSS----------S--S--------------------
-----------------------------------------------------------------------------S--
------------------------------------------------SSSSSS--------------------------
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>forward_190
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----------ACACCCTCCTCTCAGTCCTG--------------------------------------------------
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>reverse_1051
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----------TCCCCACAATAACCTCGAGC--------------------------------------------------
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>forward_737
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-----------------------------------------------------------------------------CGT
GTGTGCGTGCATATGAA---------------------------------------------------------------
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>reverse_2520
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---------------------------------------ATACTGCAACAACCACCGGT---------------------
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