>input_sequence_71086
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--------------------------------------------------------------------ATATAAAGACCA
CA--CCCTT-CCTTCATCCGCAGCGCCATAATTTCCGAGCTGCTAGCGCTACAGTCCCCATCAACAGTTCAGGCTTACAG
-----CTAGTTGCAGTACTACACGAGTACACCACCAAGCCAACGCCCAACAGAGAGGTAGTGGTGCCAT------TGGGA
GGATGGCTTCGATCGTGCTGCTGCTGTCGGAGCTGCTCGGCGGCGCGGGGAGCACCAGCATGCTGGAGGCCAACTGCTAC
ATGGGCGGCCACAGCCTGCGGGAATTCCGGCCC---GCGGCGGCCACGGGCGAGCGGGCGCCCACGGAGCCGAAGCTGCG
GGGAACAACCTCAACGGCGGCGAAGGATGAGGAGC---CGTCGTCGTTGGACCTGGAGGATCTCTCCGCCGTGTCCAGGA
TATCGGTGGACGTGATGTGGCCCTGAGCCTT----------CCGCTGACTCAGGAGGTCGATTCGCCTCGAGGTTGTTCT
GTG-TTTTGCTGCCGAGGACGAAGAAGATGTGTCATGTGATTCCTCGTTGCCTCGAGTTCTATGAAATGAACATGTAAAT
ATACAAAGCCAGCGCTGAATGTTCTCCCTGTGTTCCTTTTTGTCTCGTGACTTTTT-------------CTTCGGGGATT
CAACCTTCTGATCAGATCATAATCGACCGAACTCGTTTGCAACATTTTTTCCTCGTAGCAATCGACCGGGTACTGACAAT
AATCCCATGCTAATTGCAGAA-----------------------------------------------------------
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>chr3A_1_TraesCS3A01G182400
TGGAGGACAATCAGCGGGTGCGGCGGCAACAATCTTTGATGATTGTTTCCATTATGCTTGTGGTTTCGTTACTGGTAGAT
TTGAGCATTGTAATAGGGAAGCAAATAAAGTAGCTCATGAGCTGGCTAGATTAGCAAGATCTTCTTTGACTTCTGATTGG
TTTGAGCAGCCTTTAAATGAAATTGTAATGATCATCAGAAACGATCTACTACTTGTTACAAATGAATAAAGTCTGAGCTT
TTTCAAAAACAAAAAATCAGGACCCTAGACCTAGGCTAACTTGGATGGCAGCATAATCACCAAACTGGTCCATCACCTCC
TTCTCTCTACATAGGCCTAGTGTCAGTTTTATATGACTTTACTGCTGCCGATATGTCTGTTTCTATCTTCTTTTTTTTGC
TAGAATATTGGTGGTTGGTTGTGTGCATTTTAGGTCTGCAGTGGTCAGATGTTGCTCATCATGCCTTCTATATGCTCGAT
ACTAAATTTTAAGTTAATAAAAGCAGCATTTATGATAGAAAAAAAATCCCCTCTTTACATTTTCATTTTGAGCGGATATA
TATTCTCTATTACCGGGTTAGCCACGTGGAAAATGGAAAATGC----------CTATCCATCAGGCTGTTGTACCGGCAC
CACCTAACGTCGGTAGAGTAGAGCAAGGCAGCAACCCAGGAACCTGGACAAGGACACACACAGGATCACCTGATCCGTCC
GAGCCATCAC-------CGCACCGCACGGGACACGGCATAATACCATGCATCAGCTCACGCCAGCTGCACTCCAAAG---
AGAAAAACCACGTCTCCCAGAAAAAACAAA----TGGCAAGTTGACAACGACAAGACAAGGGGCCGTGGCTTTCTCCGCC
CTCCGTTTCGGCCGAAACCCAGCGGCCGTCAGC----TCGCTCGCTCGCTTCCTACCAAACAAGGCGGCGGCCATTCATG
GCGTGCGCGCGGAGCCGTAGACGTCCAAAACCACAGCGGACACGGCCCACCGTTACCTGCCCGCGCGCATATAAAGACCA
CA--CCCTT-CCTTCATCCGCAGCGCCATAATTTCCGAGCTGCTAGCGCTACAGTCCCCATCAACAGTTCAGGCTTACAG
-----CTAGTTGCAGTACTACACGAGTACACCACCAAGCCAACGCCCAACAGAGAGGTAGTGGTGCCAT------TGGGA
GGATGGCTTCGATCGTGCTGCTGCTGTCGGAGCTGCTCGGCGGCGCGGGGAGCACCAGCATGCTGGAGGCCAACTGCTAC
ATGGGCGGCCACAGCCTGCGGGAATTCCGGCCC---GCGGCGGCCACGGGCGAGCGGGCGCCCACGGAGCCGAAGCTGCG
GGGAACAACCTCAACGGCGGCGAAGGATGAGGAGC---CGTCGTCGTTGGACCTGGAGGATCTCTCCGCCGTGTCCAGGA
TATCGGTGGACGTGATGTGGCCCTGAGCCTT----------CCGCTGACTCAGGAGGTCGATTCGCCTCGAGGTTGTTCT
GTG-TTTTGCTGCCGAGGACGAAGAAGATGTGTCATGTGATTCCTCGTTGCCTCGAGTTCTATGAAATGAACATGTAAAT
ATACAAAGCCAGCGCTGAATGTTCTCCCTGTGTTCCTTTTTGTCTCGTGACTTTTT-------------CTTCGGGGATT
CAACCTTCTGATCAGATCATAATCGACCGAACTCGTTTGCAACATTTTTTCCTCGTAGCAATCGACCGGGTACTGACAAT
AATCCCATGCTAATTGCAGAATTAAATGGTTCTCGTAATCGGGTGGATAATGACAGTCCATCGAGCGGGTATACCCACAC
CGACCTTCTCAACCTGGACTACAGAAAACAACGCATTTTCCCTATACAAACTTGCAATCCATT-----------CTGTAA
CTGAACTTTTTGTACTTTTAACAGTGCATTTTTTGTTGTCTTGGCCTTGCAAGGCATTGTTCAGGTAAACCACAAGAGCT
CTGGAGTTTTTAAGTCCCATATTGCAAATAACATCAAACACAATTGGAAATAGTATCAAAGATCATACTATTCCATGGAT
GGTGGACTGTCATCGATAGTTCGATTCCCAGCACAGGAAATTGCTAGATGGATGGCAATGGCCTGCTAGCTAAGCTAGTA
GCGTGCCCATCCATTAAAGTAACAGTTTCTCCCTGAATTTGCACTTTCAGTAATAAGTCCTACTAGCAAAAAAACCCGTG
TGTTACAACGAGAGAAAAAAAAACATTATCTCACGTCTCTAGCTGGGTCAGTTGGATAAATTATGTGTGACCGGTTGGCA
GGTTATGAGATCGAAACCTCCCATCGGCAATTTTATTTTTTGCCAGTTCTGCGGACCTGGGCCACAATGTGCCGTCGGGT
GAGCTTCCTCAATTGGGCCAAAACGGATGGTTACCAAATAGCGTATGTGAAATTAATTGAAGCGGGACAAAACAAAGCGG
GACGAAAATAAGAATATCACCTCCCTTTAATAGTAGTTATATATATATATATATATATATAGATATAGATGTAGCACGAC
AGAGTCGATTTCCACATAATATCTATCTGCCATAACTGCAATTATGTCAATGTATATTTTAAGCATCCATTGTTTTAGGT
TCAGATCATACACGGCCGGCGTAGTGACCCTCAAAAAACCACTGAGGCCTTTTTTGGTTCATAGGATAGGATTATTATAG
GAATAGGAATCTTGTAGGAAATGAGATGACATGTATCTCAAATCCTATGAGTAGGAATAAGAAACAAGATGT
>chr3B_257
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----------------TCAGGACCCTAAAACCAGGCTAACTTGGATGGCAGTATAATCACCAGATTGGTCCATCACCTCC
T---CTCCGCATAGGCATAATGTCGGTTTTATATGACTTTACTGTTGTTGATAGGTCGGTTTTTATCTTTTTCTTTTTGC
TAGAATGTTGGTGGTTGGTTGTGTGCATCTTAGCTCTGCAGGGGTCAGATGTTGCTCATCATGCTTTCTATGCACTCGAT
ACTAAATTTTAAGTTAATAAAAGCAGCATTTATGAT---AAAAAAAATCCCTCTTTTCATTTTCATCATGAACGGATATA
TATTCTCTATTACCGGGTTAGCCACGTGGAAAATGGAAAATGTCCTAGCCTTTCTATCCATCAGGCTGTTGTACCGGCAC
CACCTAACGTCGGTAGAGTAGAGCAAGTGAGCAAACCAGGAACCTGGACAAGGACACACACAGGATCAGCCGATCCGTCC
GCCATCACCGCACGGGAC--------------ACGGCATAATACCAGGCATCAGCTCACGCCAGCTGCACTCCAAAGTTG
AGAAAACCCACGTCTCCCAGAAAAAACAAACAAATGGCAAGTTGACAACGACAACACAAGGGGCCGTAGCTTTCTCCGCC
CTCCGTTTCGGCCGAAACCCAGCGGCCGTCAGC----T----CGCTCGCTTCCTACCAAACAAGGCGGCGGCCATTCATG
GCGTGCGCGCGGAGCCGTAGACGTCCAAAACCACAGCGGACACGGCCCACCGTTGCCTGCCCGCGCGCATATAAAGACCA
CACACCCTT-CCTTTAGCCGCAGCGCCATAATTTCCGAGCTGCTAGCGCTACAGTCCCCATCAACAGTTCAGGCTTACAG
TACAGCTAGTTGCAGTACCACGCGAGTACACCACCAAGCCAACGCCCAACAGAGAGGTAGTCGTGCCACTGGGTCTGGGA
GGATGGCTTCGATCGTGCTGCTGCTGTCGGAGCTGCTCGGCGGCGCGGGGAGCACCAGCATGCTGGAGGCCAGCTGCTAC
ATGGGCGGCCACAGCCTGCGGGAGTTCCGGCCCGCGGCGGCGGCCACGGGCGACCGGGCGCCGCCGGAGCCGAAGCTG--
----------TCCACGGAGGCCAAGGATGAGGAGC---CGTCGTCGTTGGACCTGGAGGATCTCTCCACCGTGTCCAGGA
TATCGGTGGACGTGATGTGGCCCTGAGCCTGCCGCCAGCTCCCGCTGACTCGGGAGGTCCATTCGCCTCGAGGTTCCTCT
GTGTTTTTGTTGCCGACGACGAAGAAGAGACGTCATGTGATTCCTCGTTGCCTCGAGTTCTATGAAATGGAGATGTAAAT
ATGCAAAGCCACCGCTGAATGTACTCCTTTTGTTCCTTCTTGTCCCATGACTTTTCCTACACACAGTTCCTTCGGGGATT
CAACCGTCTGATCAGAGAA----CGACCGAACTCGTTTGCGACTTATTTTCCTCGTAATAATCGACCGGGTACTGACAAT
GATCCCATGCTAATTGCAGAATTATATGGTTCTCGTAATCGGGCGGATAATGACAGTCCATCGAGCGGGTATACCCACCC
--ACCTTCCCTGCGTGGACTACAGAAAACAACGCATTTTCCATATACAAACTTGTAATCCATTCTGAGATATTGCTGTAA
CTGAACTTTCTGTACTTTTAACAGCGCATTTTTTGTTGTCTTGGCCTTGCAAGGCATTGTTCAGGTAAACCACAAGAGCT
CTGTAGTTTTTAAGTCCCACATTACAAATAACGTCAAACAGAATTGCAAATAGTATCAAAGACCATACTGCTCCATGGGC
GGTGGGTTGTCTTCGGTAGTTCGATTCCAAGCA-----------------------------------------------
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>chr3D_560
ATATCTG-------------------------------------------------------------------------
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-------TATTACCGGGTTAGCCACGTGGACAATGAAAACTGGCCTAGCCTTTCTATCCATCAGGCTGTTGTACCGGCAC
CACCTAACGTCGGTAGAGTAGAGCAAGGCAGCAACCCAGGAACCTGGACAAGGACACACACAGGATCAGCTGACCCGTCC
GAGCCATCAC-------C--------------ACGGCATAATACCACGCATTAGCTCACGCCAGCTGCACTCCAAAG---
AGAAAAACCACGTCTCCCAAGAAAAACAAA---ATGGCAAGTTGACAAGGACAACACAAGGGGCCGTGGCTTTCTCCGCC
CTCCGTTTCGGCCGAAACCCAGCGGCCGTCAGCTCGCT----CGCTCGCTTCCTACCAAACAAGGCGGCGGCCATTCATG
GCGTGCGCGCGGAGCCGTAGACGTCCAAAACCACAGCGGACACGGCCCACCGTTACCTGCCCGCGCGCGTATAAAGACCA
CA--CCCTTCCCTTTAGCCGCAGCGCCATAATCTCCGAGCTGCTAGCGCTACAGTCCCCATCAACAGTTCAGGCTTACAG
-----CTAGTTGCAGTACTACACGAGTACACCACCAAGCCAACGCCCAACAGAGAGGTTGTAGTGCCAT------TGGGA
GGATGGCTTCGATCGTGCTGCTGCTGTCGGAGCTGCTCGGCGGCGCGGGAAGCACCAGCATGCTGGAGGCCAGCTGCTAC
ATGGGCGGCCACAGCCTGCGGGAGTTCCAGCCCGC---GGCGGCCAACGGCGAGCGGGCGCCGGCGGAGCCGAAGCTGCG
GGGAACAACCTCAACGGAGGTGAAGGATGAGGAGCCGTCGTCGTCGTTGGACCTGGAGGATCTCTCCGCCGTGTCCAGGA
TATCGGTGGACGTGATGTGGCCCTGAGCCTG----------CCGCCAGCTCCCGCTGACTCGG------GAGGTTGCTCT
GTG-TTTGCTTGCCGAGGACGAAGAAGAGATGTGATGTGGTTCCTCGTTGCCTCGAGTTCTATGAAATGAAGATGTAAAT
ATGCAAAGCCACCGCTGAATGTTCTCCCTGTGTTCCTTTTCGTCTCGTGACTTTCT-------------CTTTGGGGATT
CAACCATCTGATCAGATCATAATCAACCGAACTCGTTTGCAACATTTTTTTCTCGTAATAATCGACCGGGTACTGACAAT
AATCCCATGCTAATTGCAGAACTAAATGGTTCTCGTAATCGGGCGGATAATGACAGTCCATCCAGCGGGTATACCCACCC
--ACCTTCTCTGCGTGGACTGCAGAAAACAACACATTTTCCGTATACAAACTTGCAGTCCAGTCTGAGATATTGCTGTAA
CTGAACTTTTTGTACTTTTAACAG--CATTTTTTTTTGTCTTGGCCTTGCAAGGCATTGTTCAGGTAAACCACAAGAGCT
CTGGAGTTTTTAAGTCCCACATTACAAATAACATCAAACAGAATTGCAAATAGTATCAAAGATCATACTACTCCATGGGT
GGTGGGTTGTCTTTGATAGTTCGATTCCAAGCA-----------------------------------------------
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>SNPs
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSS-----------S-S-S-------------------S----------S-S---------------
-SSS---SS-------S--S----S-------------------S--SS----S---S----S------S--S-------
------S---------------------S----S-------S----------------------S------SSS------
------------------------------------SSS-------SS--------S---------SS---S--------
------------------------------------------S-------------------------------------
--------------------------------------------------------------------S-----------
------------------SSSSSSSSSSSSSS--------------S---------------------------------
------------------------------------------------------S-------------------------
--------------------------------------SSSS--------------------------------------
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--------------S-S---------------------------------------------------------------
-------------------------------------------------------------S------------------
------------------------------------------------------------------------S-------
-----------------------S--------------------------------------SS----------------
-----------------S--------------------------------------------------------------
------------------------------S--------------------S-------S----------------S---
---------S------------------SS-----------------------------------------S--------
--S--------S--------------------------------------------------------------------
-----S---------------------------------------------------SS---------------------
-------------------------------------------S----------------------------------S-
SS--------SS-S---------------------------S--------------------------------------
------------------------S-------------------------------------------------------
-------------------S---S----------------S-----S-----------------------S-------S-
-----SS----S----------------S----SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
>forward_40
--------------------CGGCGGCAACAATCTTTGAT----------------------------------------
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>reverse_1055
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--------------CATCCGCAGCGCCATAATTT----------------------------------------------
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>forward_292
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--------------------------------AGGCTAACTTGGATGGCAGC----------------------------
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>reverse_2310
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---------------------------------------------------------------------ACCGGTTGGCA
GGTTATGAG-----------------------------------------------------------------------
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