>input_sequence_83490
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---------------------------------ATGGGCGTCGACAGGGGGAGCACCTCGGTGCAGTTTGACGACTTCCT
GCCGTCGATGGCGAAGAAGCTCGGCGCAGAGGGGCTGATCCAGGAGCTCTGCAAGGGGTTCCAGCTGCTCATGGACCCCA
GGGCCGGCAGGATCACCTTCCAGAGCCTCAAGAGGAACGCTGCTAGGCTGGGGCTCGGCGAGCTCCGGGACGACGAGCTC
CAGGAGATGATGAGGGAGGGGGACATGGACGGGGACAGCGCCCTGGATCAGACCGAGTTCTGCATTCTCATGGTCAGGCT
GAGCCCTGAGCTCATGGAGCAAGAGTCGCATAGGATGTTTGAATGTTGA-------------------------------
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>chr3D_1_TraesCS3D01G316100
AAGAGTATATAAGAGGGTACAAACCGACTTGGGGTAGAGGTACAAAACTGACTTGGACTAGAAGTCGTATACCATAATGA
CTACTCTAACACGGTCGTCTCAGGACTCTATG---TTTTTTTAACCCATTTTCTTCTATCTATTGATTAATTCACATGCA
GTCGGGTCGGCTCGTCGCTTACAGTA--GTGTGGAAAGCGAGAACGGTTGAGAGGACGTAGGCAAATTACAA-GTTAT-C
TTCCCAAAAGAAGAGGCCCTCCCATGTCTACGATGCTTCCTGTCACCTACTATAGCTCCACCAAGAAATAATCAGGTGAA
TAGTATCGGTACTGCATCAAAACACACCGGAATCCGAAAACTAGGCCTGCAAAATTCTCTTTAATCCTCATCGC-AAACC
ATCAAGTGTGATCACAACTGACGAGCAACGGCGTTAGCGCGTAGGACTCGAACACATATCAACTGAACGGAAATTTCCTG
CGAGTCGAGTCATTTAAGATGACCACGTCAAAATGCCGTCCAGCAGCTACACAAATCGGAAATAAATACGCCACCTTCCT
CGAGATCACCTCAGTTTATACTAGTTATATGATCAGCCAGACACATTGACCTGACTCTGCCTATTTTCTTAATGACTCAT
AAAGAAAAAG------------AGGCACACATCATCACATCACATGAGACCCCTGCAAGCAATCCGGCA---------C-
-------------AAGCCTCCTTCCTTCCGTCGTACGACGTGCTGGCTACTTCGCAGAAACCAACCGAAAACCGCCGGGC
GCAGCAACGTCCTAGAC-ATAGCTAAGCCAGCCACGACGCCTGCAATTA-----CCTGTACTTTGGTTGGCATCCATGGA
GAGGCTGCTTCCTTCCCAGAACCT-ATGGACTCCTTCCTCCCCCGTCACCAC-------CCCCTTATTTAAGCACCCACC
CACCATTCTCCTCTCATTCTC------CATTCACCACTGTTGCAAGCT-----GGGCCGGGTGTTCTTGA-----TCCTT
TGTTCTTCGCCGTCGACGAGGATCGGGCACAGCATGGGCGTCGACAGGGGGAGCACCTCGGTGCAGTTTGACGACTTCCT
GCCGTCGATGGCGAAGAAGCTCGGCGCAGAGGGGCTGATCCAGGAGCTCTGCAAGGGGTTCCAGCTGCTCATGGACCCCA
GGGCCGGCAGGATCACCTTCCAGAGCCTCAAGAGGAACGCTGCTAGGCTGGGGCTCGGCGAGCTCCGGGACGACGAGCTC
CAGGAGATGATGAGGGAGGGGGACATGGACGGGGACAGCGCCCTGGATCAGACCGAGTTCTGCATTCTCATGGTCAGGCT
GAGCCCTGAGCTCATGGAGCAAGAGTCGCATAGGATGTTTGAATGTTGATGTAACTTGACTTTTGTTACTTGCATACAAT
AGAACATACTGATTGCCAGTGATACAGAGATCCAATCCATTGTTTGTGCACTCCCT----ACTGAAACATAATAGTACTA
GTCTGGCTGATCATGCTATTGAAATACCAACACACAATTTTTGGACAGCAGGCTTATAAAAAACAGATCACAGCACGCAA
ACGGTTGATTATATAACATGAAGTATCACAGGCCTATGTCCCGCCATCGGCGAAAGCCAGACGACTTATTAGGCAACCCA
TTAGAGCATTTCGTGCAAAAATGTGCAGTACAACAACTCCTTTGGTTTACTTGACAGAATCAACATACTAAAA-GATGCC
ATCTCGTTTACTTTGCCGAGAAATGTTGTCTGCCCCCTCAAACTTAGCTATGTGGCATTTTCCTATCCCTTTATGAAAGG
TCTACTGGAGTCCCACAGAGCTCACCGATCTCCTTCTCTAGAAGCCGCATGAGATTTACTCCAGTCCGCCTATAAACCCA
ACTGTCTGTTGCTGCATCCCAGTCAAACCTCGCAGGCCCACTGCAGACATGATATAGACACCCCTTTCAGATAAGAATCA
ACACGTAACAGACCAAAGTTGAACAGCTTATGGGTAATGGGCAGTTCAATTTAAACAAACACTTGGATATCTGAGCAGGA
TCTTTTAAGAGTGGGATCTTTTAAGGAAATCAAGCGTTGGGGAAAATTTAAAGCCATGCTGAAAAGCACAAAGCCATAGC
CCATATGGGATAAGTATCAAAATAATGCTGTAGAATGCAAATATACTCTTCTTAAACTGAAAAGGTACCGATGCCAGTAA
ACTGTCCTAGACAAGTATCAGCGTAACATAATAGCAAGCACAACTTCAAAGTTATACAGCATGGCAAATAAGATAATAAT
ATGCTTAAGTTCAAGTAGTATACACATCAAACGAGCAGCAAATAAGACAAGACAACCATACCTCACAGGTGAAGATAGCC
AGATTTGTCTGTTT
>chr3B_94
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-------------GTCGTTTCGGGACTCTGTATGTTTTTTTTAACCCATTTTCTTCTGTCTATTGACGAATTCACATGAA
GCCGGGTCGGCTCGTCGCTTACAGTATAGTGTGGTAAAAGTGAGAACG---GAGGACGCAGGCAAATTGCAA-GTTATTC
TTCCCGACAGAAGAAGCCCTCCCATGTCTACGATGCTTCCTGTCACCTACTATAGCTCCACCAAGTAATAATCAGGTTAA
TAGTATCGGTACTGCATCGAAACATACCGGAATCGGAAACCTAAGCCGGTAAAATTCTCCTTAATCTTCATCGC-AAATC
ATCAAGTGTGATCACAACTGACGAGCAACGGCGTTAGCGCGTAGGCCTCGAACACATATCAACTGAACGGAAATTTCCTG
CGAGTC-----ATTTAAGATGACCACGTCAAAATGCCGTCGAACAGCTAAACAAATCGGAAATAAATACGCCACCTTCCT
CGAGATCACCTCAGTTTATACTTAGT-TATGATCAGGCACGCACATTGACCTGACTCTGCCAAAAAATTTAATGACTCAT
AAAGAAAAAGTACTGCAAAAGGAGGCACACAT-----CATCACATGAGACCCCTGCAAGCAATCCGGTACCGGAGAAGC-
-------------AAGCCTCCTTCCTTCCGTCGTACGACGTGCTGGCTACTTCGCAGAAACCAACCGAAAACCGCCGGAC
GCAGCAACGCCCTAAGC-ATAGCTAAGCCAGCCACGACGCCTGCAATTA-----CCTGTACTTTGGTTGGCATCCATGGA
GAGGCTGCTTCCTTCCTAGAAGCTCATGGACTCCTTCCTCCCCCGTCACCACTCGCCGCCCGCTTATTTAAGCACCCACC
CACCATTCTCCTCTCATTCTCATTCTCCATTCACCACTGTTGCATTGCAAGCCGG-CCGGCTGTCTCCTTGATCCTCCTC
CGTTTTTCGCCGTCGACGTGGATCGGGTGCGGCATGGGCGCCGACAAGGGGAGCACCTCGGTGCAGTTTGACGACTTCCT
GCCGTCGATGGCGAGGAAGCTCGGCGCGGAGGGGCTGATCCAGGAGCTCTGCAAGGGGTTCCAGCTGCTCATGGACCCCA
GGGCCGGCAGGATCACCTTCCAGAGCCTCAAGAGGAACGCGGCCAGGCTGGGGCTCGGCGAGCTCCAGGACGACGAGCTC
CAGGAGATGATGAGGGAGGGGGACATGGACGGGGACGGCGCCCTGGATCAGACCGAGTTCTGCATTCTCATGGTCAGGCT
GAGCCCTGAGCTCATGGAGCAAGAGTCGCATAGGATGTTTGAGTGTTGATGTAACTTGACTTTTGTTACTTGCATACAAT
AGAACATACTGATTGCCACTGATACAGAGATCCAATCCAGTGCTTGTGCACTCCCTTCCTACTGAAACATAATACTAGC-
--CTGGCTGATCATGCTATTGAAATACCAACACACAATTTCTGGACAACACACTTATAGAAAACAGATCACAGCACGCAA
ACGGTTGATTATATAACATGAAGTATCACAGGCCTATGTCCCGCCATCGACGAAAGCCAGACGACTTATTAGGCAACCCA
TTAGAACATTTCGTGCAAAAAAGTGCAGTACAACAACTCCTTTGGTTTACTTGACAGAATCAACATACTAAAAAGATGTC
ATCTCGTTTCCTTCGCCGAGAAATGTTGTCTGCCCCCTCAAACTTAGCTATGTGGCATTTTCCTATCCCTTTATGAAAGG
TCTACTGGAGTTCCACAGAGCTCACCGATCTCCTTCTCTAGAAGCCGCATGAGATTTACTCCAGTCCGCCTATAAACCCA
ACTGTCTGTTGCTGCATCCCAGTCAAACCTAGCAGGCCCACTGCAGACATGATATAGACACCCCTTTCAGATAGGAATCA
ACAAGTAACAGACCAAGATTGAAGAGTTTATGGGTAATGCACAGTTAAATTTAAACAAACACTTGGATATCTGAGCAGGA
TCTTTTAAGAGTGGGATCTTTTAA----------CGTTGGGGGAAATTTAAAGCCATACTGAAAAGCACAAAGCCATAGC
CCATATGGGATAAGTATCAAAATAATGTTGTAGATTGCAAATATACTCTTCTTAAATTGAAAAGGTACTGATGCCAGTAA
ACTGTCCTAGACAAGTATCAGTGTAACATAATAGCAAGCCCAACTTCAAAGTTATACAGCATGGCAAATAAGATAATAAT
ATGCTTAAGTTCAGGTAGTATACACATCAAATGAGCAGCAAATAAGATAAGACAGCCATACCTCACAGGCGAAGATAGCC
AGATTTGCCTGTTT
>chr3A_159
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-TCGGGTCGGCTCGTTGCTAACAGTA--GTGTGGCAAAAGTGAGAACG---GAGGACGTAGGCAAATTACAAAGTTAT-A
TTCCCAAAAGAAGAAGCCCTCCCATGTCTACGGTACTTCCTGTCACCTACTATAGCTCCACCAAGAAGGAATCGGGTGAA
TAGTATCGGTGCTGCATCAAAACACACCGGAATCCGAAACCTAGGCCAGTAAAATTCTCTTTAATCATCATCGCAAAATC
ATCAAGTGTGATCACAACCAACGAGCGACGGCGTTAGCGCGTAGGACTCGAACACACATCAACCGAACGGAAATTTCCCG
CCAGTC-----ATTTAAGATGACCACGTCAAAATGCCGTCCAACACCTAAACAAATTGGAAATAAATACGCCACCTTCCT
CGAGATCACCTCAGTTTATAG-TAGT-TATGATCAGCCACACACATTGACCTGACTCTGCCAAAATTCTTAATGACCCAT
AAAGAAAACGTACTTG-------GGCACACAT-----CATCACATGAGACCCCTGCAAGCAATCCGGCA---------CC
GGAGAAGCAAGCCAAGCCTCCTTCCTTCCGTCGTACGACGTGCTGGCTACTTCGCAGAAACCAACCGAAAACCGCCGGAC
GCAGCAACGTCCTAACAGATAGCTAAGCCAGCCACGACGCCTGCAATTGCCTTGCCTGTACTTTGGTTGGCATCCATGGA
GAGGCTGCTTCCTTCCCAGAACCTCATGGACTCCTTCCTCCCCCGTCACCACTCGCCGCCCCCTTATTTAAGCGCCCACC
CACCATTCTCCTCTCATTCTC------CATTTACCACTGTTGCATTGCAAACCGGGCCGGCTGTCCCTGA-----TCCTC
CGTTCTTCGCGGTCGACGTGGATCGGGCGCGGCATGGGCGCCGACAAGGGGAGGACCTCGGTGCAGTTCGACGACTTCCT
GCCGTCGATGGCGAGGAAGCTCGGCGCGGAGGGGCTGATCCAGGAGCTCTGCAAGGGGTTCCAGCTGCTCATGGACCCCA
GGGCCGGCAGGATCACCTTCCAGAGCCTCAAGAGGAACGCGGCCAGGCTGGGGCTCGGCGAGCTCCGGGACGACGAGCTC
CAGGAGATGATGAGGGAGGGGGACATGGACGGGGACGGCGCCCTGGATCAGACAGAGTTCTGCGTTCTCATGGTCAGGCT
CAGCCCTGAGCTCATGGAGCAAGAGTCGCATAGGATGTTTGAATGTTGATGTAACTTGACTTTTGTTACTTGCATACAAT
AGAACATACTGATTGCCACTGATACAGAGATCCAATCCAGTGCTTGTGCACTCCCTTCCTACTGAAACATGATACTAGTA
---TGGCTGATCATGCTATTGAAATAACAACACACAATTTTTGGACAACACGCTTATAAAACACAGATCACAGCACGCAA
ACGGTTGATTATATAACATGAAGTATCACAGGCCTATGTCCCGCTATCGACGAAAACCAGACCTCTTATTAGGCAACGCA
TACGAGCATATGGTGCAAAAATGTGCAGTACAACAACTCTGTTGGTTCACTTGGCAGGATCAACATACTGAAA-GACATC
ATCTCGTTTACTCCCTC--GAAATGTTGTATGCCCCATTGGACTTAGCTATGTGGCATTTTCCTATCCCTTTATGAAAGG
TCTACTGGAGTTCCACAGAGCTCACCGATCTCCTTCTCTAGAAGTCGCATGAGATTTACTCCAGTCCGCCTATAAATCCA
ACTGTCTGTTGCTGCATCCCAGTCAAATCTAGCAGGCCCACTGCAGACATGATATAGACACCCCTTTCAGATAAGAATCA
ACATGTAACAGATCAAGATTGACGAGCTTATGGGTAATGGACAGTTAAATTTAAACAAACACTTGGACATCTGAGCAGGA
TCTTTTAAGAATGGGATCTTTTGAAGAAATAAAGCGTTGGGGAAAATATAAACCCATTCTAGAAAGCATAA------AGC
CCATATGGGATAAGTATCAAAATAATGCTGTAGAATGCAAATATACTCTTCTTAAACTGAAAAGGTACTGATGCCAGTAA
ACTGTCCTAGGCAAGTATCAGCGTAACATAATAGCAAGCCCAACTTCAAAGTTATACAGCATGGCAAATAAGATAATAAT
ATGCTTAAGTTCAGGTAGTATACACATCAAATGAGCAGCAAATAAGACAAGACAACCATACCTCACAGGTGAAGATAGCC
AGATTTGTCTGTTT
>SNPs
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSS-----S--S-------S-S-------------------------S--------SS----------S-
----------------------------------S--SS-S--SSSSSSSS-----------------------------
--------------S-----------------------------------------------------------------
---------------------------------------S-------S-S----------------S-----------S-
--------------------------------------------------------------------------------
------SSSSS-------------------------------S------S------------------------------
----------------------SSS-S------------S---------------------S-SS---------------
--------------------------------SSSSS-------------------------------------------
------------------------------------------------------------------------------S-
--------------SS----------------------------------------------------------------
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--------------------------------------------SSSS------------S---S-S------------S
S-----------------S---------S-S---------S-----S---------------------------------
--------------S------------S----------------------------------------------------
----------------------------------------S--S------------------------------------
------------------------------------S-------------------------------------------
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------------------S--------------------S--S-------------------------------S--S--
SS---------------------------------------------S--S-----------------------------
-------------------------------------------------S------------------------------
------------------------------------------------------------------------------S-
-------------S------------------------------------------------------------------
-----------S--------------------------------------------------------------------
------------------------------S-------------------------------------------------
---S------------SS-----S----------------S-----S---------------------------------
------------------------S-----S--------------------------S----------------------
--------------------------------------------------------------------S-----------
---------------------------------------S----------------------------------------
-------------S-----------------S------------------------------------------------
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>forward_35
---------------GGTACAAACCGACTTGGGGT---------------------------------------------
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>reverse_1774
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-------------TGCCGAGAAATGTTGTCTGC-----------------------------------------------
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