>input_sequence_80708
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ATGCATGAACTTGTTACCAGTGCAATGGCGTCCCTGGTGGCCATGACTAGTATGTCGGCGCAGGAGACCCGGTTCCGGCA
CCGTGGCACGGCGTCGACGGCCGCCTTGGCCTTGATCACCGTGTCGAAGCCGTCGCCGGCCAGCGACAGGTTGGCAGTGC
TGTCCTTCTCCGCCGTGTTGTTGGCCGTGGACGCGATCAGCACCGACGCGTCGCACCCCTACATGCACACAAACGTTGAA
GCGTAGCGTATGGCGGC------ATGGTTCTTCATGCA--CGTACGTAGGGTGCATGTTTGCCTGTTACCTCGACGAAGC
AGTCGTGGAAGAAGAGGTGCACGGTGGCGCCCACGGTGATGAAGGTCTGCTGGAACTTCTTGGCGACGGCGCCCCGGACG
ATGGCTTCGACGTCGGGGCACACGCCGGCATAA-----------------------------------------------
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>chr2B_1_TraesCS2B01G278600
GAGGGAAGAAGACATGTCTCGCTCCCATATATATG-CTAGAAGGTGTTTGTGTACTTCCATCGTGTTGCCACACACCTCC
TGACCGACATGGCTCCACCACTCCATGCAACATGTTAACTTGAGGGAGGCTACAATAGAATCAAGTCTTAGCATTAGAAA
A-------------------------------------------------------------------------------
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-------------------------------------------------------------------AATAGACAAATGT
GGTGTGGACCGTATGATCTTCAATGGCTGTCCTAGATTTTCTGAGAGGGTGGATGGATGTGTTTTATATAAAACTGTTAT
TTAGGGAGGTTGTTGCGGAATCATCCAACTTGTCCCTGACAGCAAATCGTGAAAACATATTCTAGCAATCCTGTAGATGG
ACAGAGCAATCAATTAAGTTGATGATCCATCGAAGAATATATTTTTTGGTTTTGGAGGGATTGATCCATCAAAGATGTCA
TTGTAGGACA--GGGTCATGGGCCGGCAGCCCGGCACGTAGGTTTGTCTCGTCGCATTCGACGTCTTCTCCATTGATGAG
GCTGGACTGGAGTTTGGCGGCTTTGCACACTCCGAACAGGGCAGGTAACGCATGGTATGTCCGATTTGGAATTGGGTGCA
ACCCTGGTTTACCTAGCTTTCACCGTCATTAGTGTCCCTATCCCAAC--TTGATTTCAATGTGCAAGCAAAGCAAACGTA
CACAGAGCCCGTACGTACACGATCAGCAACGCGTAATTTGCCGCCTTATAATATTTG-TTTTTTCGAAGTATCATTATAC
TGGTACTGGACT--------------------------------------------------------------------
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-------------------------------------------------------TAATTACGTACGTACCGGAGAGGGC
GATCATGTCGGTCTGAGAGAGCCCGTTGGTGGCGAAGAGCGCCGTGAGCTGATCGAGGCTGGACGTCGGCGGGGCCAGCT
TGCCGGGGACGCTGCTCGCCGTCGAGCTCAGCCCGTCCAGCCGCCCCAGCTCCACCGCGTACGACGGCCCGCCAGCCTGC
GCCAAACCG--TACGTGTCTTGCGTTAGCTAAT---AAATACTTGTGTGCGTACGTATGAGAATCAGGCGGAAGAGATCG
ATGCATGAACTTGTTACCAGTGCAATGGCGTCCCTGGTGGCCATGACTAGTATGTCGGCGCAGGAGACCCGGTTCCGGCA
CCGTGGCACGGCGTCGACGGCCGCCTTGGCCTTGATCACCGTGTCGAAGCCGTCGCCGGCCAGCGACAGGTTGGCAGTGC
TGTCCTTCTCCGCCGTGTTGTTGGCCGTGGACGCGATCAGCACCGACGCGTCGCACCCCTACATGCACACAAACGTTGAA
GCGTAGCGTATGGCGGC------ATGGTTCTTCATGCA--CGTACGTAGGGTGCATGTTTGCCTGTTACCTCGACGAAGC
AGTCGTGGAAGAAGAGGTGCACGGTGGCGCCCACGGTGATGAAGGTCTGCTGGAACTTCTTGGCGACGGCGCCCCGGACG
ATGGCTTCGACGTCGGGGCACACGCCGGCATAATGGTCCCGCCGGAGCTGCGCCGCGCACATGTTGGCGCTCGCGGCCAG
TACCGCCACCACCAGGAGCGCCGCCACGGCCGGAGTCATGTGGCCCGCCGTCG-----TAGCTCGGTAGATAACGCGTGT
TCGCCGCCGCCACAAAT-ATATGCGGACGCAGACGTACACGCAGTGGGGCGGCGCCGTGTGTTGGGTTTGTCTTGGTGGA
GCGCAAGGCGACGCGACGACGGCAAGTTTGGGTTTGTGGTAGGGGCACCGAAGGATAAGGTCACACAGAGAGGGCCACTA
ATGAATCGATCGGTGGTGGTCTCTCCATCGACTACGCTTATCGGCGTGCAGTGCAGGCAGCGAGTGTCCGTTGCCTTCGT
GACAGTGATCTGAAAACGATGCTACTCTTGAATATTCCGATGCCCACAAAATTA--------------------------
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AGCTAGCCTCAAAATCTGCGGTACACAGGGTACTCGAG------------------------------------------
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-------------------TGCTTTAGGAAGGTTGCAACACATACTT----------------------------GTATT
TCCATTTCCATCACGGAAAACAGTCGAGTACTCGATCAGCTCTGCTCTGCTCTGGA------------------------
--------------GTAGTTGGTTTCATCGCTGCGTAGTGCATGCCGTAAGTGGACGGGGTTTTCCAAGCGCGTAATTTC
TGATATGAAACAAGGAAGACAAATGAATCTCTGTCTATTTCATTATTGACGATGTTTGTACATTATATATCTCTCAAGGT
GTTAGAATAATCCGAAGCGCACGTCGATCTACCGAGGACCAAGTAATCACACGAGTATGGTATTGCGATTTGTTAACGAG
GTTGACCATCATGGCTAAATCCTCGGGGCATTAACTACGGATGCTCTTCCCCATGACACCGCTATAATACCGCACCCCGG
CCGGCCGGGCGCCTGCACATGCTGCAGCCCGTCAATGGCCTCGCCTGCACGCTGCACCTGACCGCTATTCGATCCGATTA
TGCATATGCCGCCGCCGCTGTGAACGATCTGCTCCGATTGCTTTTCCTGCGACAGTTTCCACGTCCATCGAG
>chr2A_1
GAGGGAAGAAGACATGTCTCGCTCCCATATATGCTACTAGAAGGCGTTTGTGTACTTGCATGGTGTTGCCACAC------
--ACCGACATGGCTCCACCACTCCATGTAGCATGTTAACTCGAGGGAGGCTACAATATAATCAAGTCTTAGCATTAGAAA
AAGGGAAACGCTCCGCTTCAACCGGCCGATTTCCACACCATTATCCGCCGCCTCCTCCACGCGACATGTGTCTTGCGTGG
GACCACCAACCACTACAACGGGAGGTTCCTGTTCCTCTTCAATATCTTCGCAAGCGAATGAATGAGGTCCCGAGCGCATG
AGACTGCCGATGAGGTCTGGATGCGGGCAAAATTTTCTGCAACATTACCTATGTTGCAGAAGTTTTTCCGCAATATCACT
GATGTTGCAAAAAAAATGAAGACCAAAAAAAAATTTCTGCAACATTATCTATGATGCAAAAGTTTTTCCGCAACATCACT
TATGTTGCGAAAAATGAAGCTCAAAAACATTTCTGCAAATTGACATATGTTGCAAATGTCTTCCGCAACACAACTTTTGT
CACAAATATTTCTGCAACAAGATATCTGTTGCAAATGGGTTCTGCAACCTGTCTTTTGTTGCAAAACTAGAGGAAAAGCT
ATGTTGCTAGATTTGCCAGATCAGATGGCCCGCGAGGCGGGCGACAGATAGCATGCCCCTTGGAAAAAATAGACAAACGT
GATGTGGACCGTAGGATCTTCAATGGATGTCCTAGATTTTCTGAGAGGGTGGATGGATGTCTTTTATACAAAACTGTTAT
TTAGGGATGTTGTTGCGGAATCATCCAACTTGTCCCTGACAGCAAATCGCGAAAACATATTCTAGCAATCCTGTAGATGG
ACGGAGCAATCAATTAAGTTGATGCTCCGTCGAAGT-------TTT---TTTTGGAGGGATTGATCCATCAAAGATGTCA
TTGTAGGAAA--GGGTCATGGGCCGGCAGCCAGGCACGTAGTTTTGTCTCGTCGCATTCGACGTCTTGTCCATTGATGAG
GCTGGACTGGAGTTTGGCCGCTTTGCACACTCCCAACAGGGCAGGTAAA-CATGGTATGTCCGATTTGGAATTGTGTGCA
AGCCTGGTTTACCTAGCTTTCACCGTCATCAGTGTCCCTATCCCAGC--TTGATTTCAATGTGCAAGCAAAGCAAACGTA
CACAGAGCCCGTACGTACACGATCAGCAACGCGTAATTTGCCGCCTTATAATATTGTTTTTTTCGAAAGTATCATTATAC
---TAGACTTAATTACGTATAGGGCTGCAAGAAAAGCACGAGGCTCGTAGCCGCTCGAGATCGACTCGTTTTTTGACTCG
ACTCGAGATCGACTCGAAAAGAAACAAACTGAGTTTGAACACTTTTTGTAGCTTGACCGAGAAACGAGCCGATCTTGAGC
TAATGTTGGCTCGCTCGATTTTAGCTCGATAGCTCCACAGAATATCATTATGTTAAATGATCATGCCATATATTAAACGA
AAATAAGATAATTTAGTACCATATATGTTGTCAATAATTTTTTTCCATTTTATTTACCAACGAACATGGAAACTTAATTA
AGTGCAGAGAAGATTTAGGCATAATTATGTCACGTGGTCGACTATGTGTTAAATATCTTATATTTTTGGCAAAGGTTCTT
AGCATATTCACCTTAATTTTTTTGTTTTTATCCACAGATTTATAATTTTTACCATCTCATTTAGCTCGAAACTAGCTCGA
GATCGTTACAAACTAAGCATGAGTCATATTCTACAGCTCGATCATGAGCTTCATTTAGTTTGAGCTCGCTTGAATTTTCA
TATGAGTTGAGCTGAGCCAACTGCAACTCGCTCGAGCTTGACTCGTTTGCGGCCCTAATTACATACGTACCGGAGAGTGC
GATCATGTCGGTCTGCGAGAGCCCGTTGGTGGCGAAGAGCGCCGTGAGCTGGTCGAGGCTGGACGTTGGCGGGGCCAGCT
TGCCGGGGACGCTGCTCGCCGTCGAGCTCAGCCCGTCCAGCCGCCCCAGCTCCACCGCGTACGACGGCCCGCCGGCCTGC
GCCAAACCGCGTACGTGCCTTGCGTTAACTAATTATAAATACTTGCGTGCGTACGTATGAGAATCAGCCGGAAGAGATCT
ATGCATGAACTTGTTACCAGTGCAATGGCGTCCCTGGTGGCCATGACTAGTATGTCGGCGCAGGAGACCCGGTTCCGGCA
CCGTGGCACGGCGTCGACGGCCGCCTTGGCCTTGATCACCGTGTCGAAGCCGTCGCCGGCCAGCGATAGGTTGGCAGTGC
TGTCCTTCTCCGCCGTGTTGTTGGCCGTGGACGCGATCAGCACCGACGCGTCGCACCCCTACATGCACCCAAACGTTGAA
GCGTAGCGTATGACGGC------ATGGCTCTTCATGCG--CGTACGTAGGGTGCATGTTTGCCTGTTACCTCGACGAAGC
AGTCGTGGAAGAAGAGGTGCACGGTGGCGCCGACGGTGATGAAGGTCTGCTGGAACTTCTTGGCGACGGCGCCCCGGACG
ATGGCTTCGACGTCGGGGCACACGCCGGCGTAATGGTCCCGCCGGAGCTGCGCCGCGCACACGTTGGCGCTCGCGGCCAG
TACCGCCAAAGCCAGGAGCGCCGCCACGACCGGACTCATGTCGCCCGCCGTACTCTCTTAGCTCGGTAGATAGCGCGTGT
TCGCCGCCGCCACAAATAATATGCGGACGCAGACGTACACGCAGTGGGGCGGCGCCGGGTGTTCGGTTTGTCTTGGTGGA
GCGCAAGGCGACGCGACGACGGCAAGTTTGGTTTTGTGGTAGGGGCACCCAAGGATAAGGTCGCACAGAGAGGGCCACTA
ATGAATCGATCGGTGGTGGTCTCTCCATCGATTACGCTTATCGGCGTGCAGTGCAGGCAGCGAGTGTCCGTTGTCTTCGT
GACAGTGATCTGACAACGATGCTACTCTTGAATATTCCGATGCCCATAAAATTAAGGGTTTGTTTGGTTTCAATAAGTCA
CTTGACTTATAAGTCAAGTCATTTTGGTTGTCATCTGATTTATAAGTCATCTGACCACATCTTTTTACCTTATTTTTTAT
ATAAAGGTGGTGTGACTCATTAAAAAAGGGGATTTATAAGTTTTAAGTTAGGATGGAGCAACTTATAACTTATAAGTTGA
ATTTGTTTGGCAAAATAAGTCATTTTTTTCCACTTTTCGACTTATAAGTTGGTGACTTATTTGAAACCAAACATGGCCTA
AGCTAGCCTTAAAATCTGCGCTACACAGGGTACTCGAGGGATCCGGCTTGCCTGCTCCTTTCCCGTGCTCCCATCCGTGC
TCCCACTTAATCCTACGGCTGTCTTTTTTTCCTTTTTTCTTTTTAATCTAATCATGTTCCCTCCTGATTTTAAGGGGGTG
GGGCCGGGTCTTATTTTGCTCCAATCAAATCAAGCCATGTAGACGGGAGCACGGATGGGCACACGACGGGGGAGCAGGCA
AGTCTCGTCCGTACTCGAGTGCTTTAGAAAGGTTGCAACATACACTTGTATTTCCACCATGTTAATATATATCCAGTATT
TCTATTTCCCTCACGGAAAACAGTCGAGTACTCGATCAGCTCTG-------CTGGAGACAGGGCGGGCAGAAAGTCTGGC
CGTGTCGTAGGTACGTAGTTGGTTTCATCGCTGCGTAGTGCATGCCGTAAGTGGACTGGGTTTTCCAAGCGCGTAATTTC
TGGTATGAAACAAGGAAGACAAATGAATCTCTGTTTATTTCATTATTGATGATGTTTGTACATTGTATATCTCTCAAGG-
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>chr2D_350
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----------------AGTTGATGATCCATCGAAGAATATATATTT---TCTTGGAGGGATTGATCCGTCAAAGATGTCA
TTGTAGGACAAAGGGTCATGGGCCGGCAGCCCGGCACGTAGTTTTGTCTCGTCGCATTCGACGTCTTCTCCATTGATGAG
GCTGGACTGGAGTTTGGCGGCTTTGCACACTCCAAACAAGGCAGGTAAA-CATGGTATGTCCGATTTGGAAT-GTGTGCA
AGCCTGGTTTACCTAGCTTTCACCGTCATCAGTGTCCCTATCCTAACTTTTGATTTCAATGTGCAAGCAAAGCAAACGTA
CACAGAGCCCGTACGTACACGATCAGCAACGCGTAATTTGCCGCCTTATAATAC---TTTTTTTCGAAGTATCATTATAT
---TACTGGACT--------------------------------------------------------------------
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-------------------------------------------------------TAATTACGTACGTACCGGAGAGGGC
GATCATGTCGGTCTGCGAGAGCCCGTTGGTGGCGAAGAGCGCCGTGAGCTGATCGAGGCTGGACGTCGGCGGGGCCAGCT
TGCCAGGGACGCTGCTCGCCGTCGAGCTCAGCCCGTCCAGCCGCCCCAGCTCCACCGCGTACGACGGCCCGCCGGCCTGC
GCCAAACCG--TACGTGTCTTGCGTTAACTAATTATAACTACTTGCGTGCGTACGTACGAGAGTCAGCCGGATGAGATGG
ATGCATCAACTTGTTACCAGTGCAATGGCGTCCCTGGTGGCCATGACTAGTATGTCGGCGCAGGAGACCCGGTTCCGGCA
CTGTGGCACGGCGTCGACGGCCGCCTTGGCCTTGATCACCGTGTCGAAGCCGTCGCCGGCCAGCGACAGGTTGGCAGTGC
TGTCCTTCTCCGCCGTGTTGTTGGCCGTGGACGCGATCAGCACCGACGCGTCGCACCCCTACATGCACACAAACGTTGAA
GCGTAGCGTATGGCGGTGGCGGAATGGTTCTTCATGCACACGTACGTAGGGTGCATGTTTGCCTGTTACCTCGACGAAGC
AGTCGTGGAAGAAGAGGTGCACGGTGGCGCCGACGGTGATGAAGGTCTGCTGGAACTTCTTGGCGACGGCGCCCCGGACG
ATGGCTTCCACGTCGGGGCACACGCCGGCGTAATGGTCCCGCCGGAGCTGCGCCGCGCACACGTTGGCGCTCGCGGCCAG
CACCGCCACCGCCAGGAGCGCCGCCACGGCCGGACTCATGTCGCCTGCCGTCC-----TAGCTCGGTAGATAGCGCGTGT
TCGCCGTCCCCACAAAT-ATATGCGGACGCAGACGTACACGCAGTGGGGCGGCGCCGTGTGTTGGGTTTGTCTTGGTGGA
GCGCAAGGCGACGCGACGACGGCAAGTTTGGGTTTGTGGTAGGGGCACCGAAGGATAAGGTCACACAGAGAGGGCCACTA
ATGAATCCATCGGCGGTGGTCTCTCCATCGATTACGCTCATCGGCGTGCAGTGCAGGCAGCGAGTGTCCGTTGCCTTCGT
GACAGTGATCTGAAAACGATGCTACTCTTCAATATTCCGATGCCCACAAAAT----------------------------
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------------------------------------------------------------------------------TA
AGCTAGCCTCAAAATCTGCGCTACACAGG---------------------------------------------------
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----------GTACTCGAGTGCTTTAGAAAGGTTGCAACA----CTTGTATTTCCATTATGTTAATATATTTTCCGTATT
TCCATTTCCATCACGGAAAACAGTCGAGTACTCGATCAGCTCTGCTCTGCTCTGGAGACAGGGCGAGCAGAAAGTCTGAC
CGTGTCGAAGG----TAGTTGGTTTCATCGCTGCGTAGTGCATGCCGTAAGTGGACGGGGTTTTCCAAGCGCGTAATTTC
TGATACGAAACAAGGAAGACAAATGAATCTCTGTCTATTTC---------------------------------------
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>SNPs
--------------------------------SSS---------S------------S---S------------SSSSSS
SS-------------------------S-S----------S----------------S----------------------
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-----------------------------------------------------------------------------S--
-S-----------S------------S---------------------------------S-------S-----------
-------S-----------------------------------------S------------------------------
--S---------------------------------------S---SSS-------------------------------
-----------------------------------------S--------------------------------------
---------------------------------S--------------SS------------------------S-----
-S---------------------------S--------------------------------------------------
-------------------------------------------------------SS-----------------------
SSS-----------------------------------------------------------------------------
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---------------S----------------------------------------------------------------
-------------------------------------------------------------------------S------
---------------------------S-----------------S---------------------S------------
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-------------------------------S------------------------------------------------
-----------------------------S-------------------------------S------------------
----------S-----------------------S------S----------S-------------------S-------
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-------------------------------S------------------------------------------------
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--------------------S-----------------------------------------------------------
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---------------------------S------------S-S-------------------------------------
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-------------------------------------------------S--------------S--------------S
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
>forward_1089
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-----------------------------CTCCGAACAGGGCAGGTAAC-------------------------------
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>reverse_4075
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--------------------------------------------------------------------------CGATTA
TGCATATGCCGCCG----------------------------------------------------------
