>input_sequence_78849
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------ATGGCACAGGCGATCGAGGCTCAGAGGGAGGGCGCAGAGGTGTACCACGGCGCGGCGCTGTGCGCGGAGAAGGC
GGTGGAGCTGCTGGCCGAGACCAACATGCCGCTGGGCCTGCTGCCGCTGGCGGACATCCAGGAGGTGGGCTACAACCGCG
CCACCGGCTTCGTGTGGCTGCGCCAGAAGAAGGCGCTCACGCACACCTTCAAGCAGATCGGGCGGCAGGTCTCGTACGCC
ACCGAGGTGACGGCCTTCGTCGAGGACCGCAAGATGAAGCGCATGACCGGGGTCAAGAGCAAGGAGCTCCTCATCTGGAT
CACCCTCTGCGACATGTACATCGAGAAGGACGATCCCTCCAAGATCACCTTCAAGACGCCCACCGGG-CTGGGGAGGACC
TTCCCCGTCTCCGCCTTCGAGAAGCAGGACGACGGCAAGGCCAAGGCCGCAGCTGCCGACGGCAAGGAGGCCGTCGTGGC
CAAGTAG-------------------------------------------------------------------------
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>chr3D_1_TraesCS3D01G148900
CTATCATTGCAAGCAAGAAAGTCTCTAGCTATCTCCTCATCCATAACATAACCTTTAGGTATTTTAGGCATTTCATATCT
AGGAGAGCTAGGTCTAATAGGTGTTTCAAGATTTTTAGTTTCAAGTACTTCATCAGTCTCAACGACCCCCCTGGCCGCCG
GCCGAGCTCTCGGCAGTGATGGGTGAGGAAGGAATGGGAAGGAGGTTTGCTGGCAAGCTAGGGTTTCCCTTGGGCGCTCC
CGGGAGGGAGGCCCAGGCGGCGTCTCTCGGCGATGGCGGGGGAGGGGAGCTAGGGTTTCCCCCTGTAGCTCGTAGGAGGG
AGGCCCAACGACCCTCTCGGCAGTGGCGGGAGAGAAGGGATGGAAGGAGAGGGAGGTTTGCTCGTGGGACGAAGTGAGGG
GGGGAGCCCCAACTAATTTCACACCATCCGCGTCCATCGGTTTAATAGGCTGTCACGATTAGCACATAATTTTTGAACAC
AATAGAATCAGAGCTGCTCACATACATGCAACATGCACGTACACTCATCTATGGACACGCACACACACCCTATCCCTGTA
ATAAGCATGTTCGAGATGCTATAAGTCGGTGCAAGATCTTAAGATCGATGAAGTAACCACGTGCGGCTCGTAGTATTAAA
CCCCCGGAAGCGACATAAACCTGCATGATTCATTATGCAAGGTT------------AAAAAAAAAAGCAAGGAATCCATC
AACCGGACGCCGCCGCG--TGCGTGCGTCAGAGAGCCG--GTGACCCAACCGTCTTCCTCCCCACGCATTAATAAGCCCG
CGCCTTAAATCCCCGCTCCCAACCGTCTTCCTCCCCAGCTCTGACGACCGTATCCATCCCGGAACGGGAAACACCAACCT
GCTTTCCACCTATAAAATCCGCCCTTCCCCACCCCCCCAATCCCACAACAGCAAACCAAATCCCCCAAGACCAAAAAAGG
CCCCAGCAACCCAAGCGCGTCGACCCCATC---------------------TACTTTCAGAGATTTTATT---------A
GTCGAGATGGCACAGGCGATCGAGGCTCAGAGGGAGGGCGCAGAGGTGTACCACGGCGCGGCGCTGTGCGCGGAGAAGGC
GGTGGAGCTGCTGGCCGAGACCAACATGCCGCTGGGCCTGCTGCCGCTGGCGGACATCCAGGAGGTGGGCTACAACCGCG
CCACCGGCTTCGTGTGGCTGCGCCAGAAGAAGGCGCTCACGCACACCTTCAAGCAGATCGGGCGGCAGGTCTCGTACGCC
ACCGAGGTGACGGCCTTCGTCGAGGACCGCAAGATGAAGCGCATGACCGGGGTCAAGAGCAAGGAGCTCCTCATCTGGAT
CACCCTCTGCGACATGTACATCGAGAAGGACGATCCCTCCAAGATCACCTTCAAGACGCCCACCGGG-CTGGGGAGGACC
TTCCCCGTCTCCGCCTTCGAGAAGCAGGACGACGGCAAGGCCAAGGCCGCAGCTGCCGACGGCAAGGAGGCCGTCGTGGC
CAAGTAGGTGAGGACGGCCGGCATACTCTACAAAGTTTCGATCAAGAGTTCTCGAGTCCAGTTTTTACTATATACGAC--
---------GATTACTATTTGCTGTAATCTTTTT-AATAAACCACGCATTATATAAGGC--TGTAATACTCTGCTCCGGT
GTTTTGCCGAGGGTTGTATCATGCACATGATCGTGCCATCTTTATAATCTTATA-----------TGTGCTGTTCGCTGC
TTAATTCGTGTGAGCCTTTTTGTGTGGCAGTGTCACGAGGTGTTCGTGACTACGTGTTCTCAGA----TTTTATTTTAGG
CATGAAAAGCTTCTCTCC-CCCTTCTGCATAGATA----GACAATTCTGGTCTCCTGCTATTTAAGTGAAGTCACGTATA
GCTAGATTGGTATATCTGTCAACCAACTTTTTTGTTTTTTTAATTGACGGTAGCTGTCAGCCAATTGATGCAGAGTGCTA
CTCCTCAAATCAAATTGAAGTAGCGCGACAACTA---GAATCGACAATTTGACCTACAACGGGAAAAGTACCTTTGCTTT
AGCGCTCCGGACGGTACTTCTATTGAACACGAG-----------------------------------------------
-------------------------CTAACGGCAACTTCAACGCTGACCAATCAAACAGACCTCACCAAATGTCTCCAGG
CCATCTAATCTATACCTGGCAATGGGCAGCCCGGCCCGACCTTGCCCACGGGCCGGACCTGGGCCTAGTTCTTGAACCTG
ATGGTTGGGCTCGGGCTTGTTGTATTTGCAATTTAAGGAAGAGGCCCGGCCAGAGGTCTGACGGCCGGGGCCGGGCCTAG
GTTTTCTGCTTTGAGCTTCGTTATGCCCGGCCCGACCTAAGTTATGTTTAGGTATAATCTAATCTAACCGCCGTCAACAA
ATGTCCATCCCTGATCCGCCTTCTTCATTTGACATGCATATCCAGATGAATACAAATTTAAGCATATGTTTAATACTTGC
AAACATATGCAATTACAATAAATAAGTACTGGATTTGTATAAGCTTTTACATCCCATTGATCTCAAAAGTTGCTCG
>chr3B_561
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ATAAGCATGTTCGAGATGCTATAAGTCGGCGCAAGATCTGAAGATGGATGAAGTAACCACGTGCGATTCGTAGTATTAAA
-CCCCGGAAGCGACATAAACCTGCATGATTCATTATGCAAGGTT-----------AAAAAAAAAAAGCAAGGAATCCATC
AACCGAACGCCG--CCGCGTGCTTGCGTCAGAGAGTCGGAGAGACCCAACCGTCTTCCTCCCCACGCATTAATAAGCCCT
CGCCTTAAATCCCCGCTCCCAACCGTCTTCCTCCCCAGCTCTGACGACGGTATCCATCCCGGAACGGGAAACACCAACCT
GCTTTCCACCTATAAAATCCGCCCTTCCCCA-CCCCCCAATCCCACAACAGCAAACCAAATCCCCCAAGACCAAAAAAGG
CCCCAGCAACCCAAGCGCGTCGACCCCATCCACAGTTGAATC-TCTGAGTTTACTTTCAGAGAAGATTTT---------A
GTCGAGATGGCGCAGGCGATCGAGGCTCAGAGCGAGGGCGCGGAGGTGTACCACGGCGCGGCGCTGTGCGCGGAGAAGGC
GGTGGAGCTGCTGGCCGAGACCAACATGCCGCTGGGCCTGCTGCCGCTGGCAGACATCGAGGAGGTGGGCTACAACCGCG
CCACCGGCTTCGTCTGGCTGCGCCAGAAGAAGGCGCTCACGCACACCTTCAAGCAGATCGGGCGGCAGGTCTCGTACGGC
ACCGAGGTGACGGCCTTCGTCGAGGACCGCAAGATGAAGCGCATGACCGGGGTCAAGAGCAAGGAGCTCCTCATCTGGAT
CACCCTCTGCGACATGTACATCGAGAAGGACGATCCCTCCAAGATCACCTTCAAGACGCCCACAGGG-CTGGGGAGGACC
TTCCCCGTCTCCGCCTTCGAGAAGCAGGACGACGGCAAGGCCAAGGCCGCGGCTGCCGACGGCAAGGAGGCCGTCGTGGC
CAAGTAGGTGAGGACGGCCGGCATACTCTACAAAGTTTGGATGAAGAGTCCTCGAGTCCAATATTAACTATATACAAAGT
TTGGATGAAGAGTACTATTTGCTTTTATCTTTAT-AATAAACTACGGATTATATAAGGGGTTGTAATACTCTGCTCCGGT
GTTTTGCCGAGGGTTGTATCATGCATATGATCGTGCGATCTTTATAATCTTATA-----------TGTGCTGTTCGCTGC
TTAAT-CGTGCGAGCCTTTTTGTGTGGCAGTGTCACGAGGTGTTCGTGACTACGTGTTATCAGATTTGTTTTATTTTAGG
CATGAAAAGCTTCTCTCCTCCCTTGTGCATAGACAAAGGGACAATCCTGGTCTCCTGCTATTTAAGTGAAGTCACGTATA
GCTAGATCGGTATATCTGTCAACCAACTTTTTTGTTTTTG--ATTGACGGTGACTGTCAACCAATTGATGCAGAGTGCTA
CTCCTCAAATCAAATTGAAGTAGCGGGACAACTACTAGAATCGACAATTTGACCTACAACGGGAAAAGTACTTTTGCTTC
GATAATAAGATGGCTGTATGCATCACTCTTGATGCAGAGGCCGGGGAGTCCCCCATTTTCCAAAAAAAAAAGGGGAAAAG
TACTTACGTTACTTCAACGCTTTTTCTAAGGGCAACTTCAACGGTGATCAATCAAACAGACCTCACCAAATGTCTCGAGG
CCATCTAATCTAACC-----------------------------------------------------------------
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>chr3A_634
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-------------------------------------------------------------------------TATTAAA
-CCCCGGAGGCGACATAAACCTGCACGATTCATTATGCAAGGGGAACAAGTTCAAAAAAAAAAGGAGCAAGAAAACCACC
AACCGCACGCCG--GCG--TGCGTGCGTCGGAGAGCCG--GAGACCCAACCATCTTCCTCCCCACGCGTTAATAAACTCT
CGCCTTAAATCCCC--TCACAACCGTCTTCCTCG-------------------CCATCCCGGAACGAAAAGCACCAAA--
----TCCAGCTATAAAGTCCGCCCCTCCCCA-CCCC-CAATCCCACAACAGCAAACCAAACCCCCTAAGACCAAAAAAGG
CCCCAGCAACTCCAGCGCGTGG--------------AGTTGAATCTGAGTTTACTTTGAGAGATTTGATTGGTTCAATCA
GTCGAGATGGCGCAGGCGATCGAGGCTCAGAGGGAAGGCGCGGAGGTGTATCACGGCGCGGCGCTGTGCGCGGAGAAGGC
GGTGGAGCTGCTGGCCGAGACCAACATGCCGCTGGGCCTGCTGCCGCTGGCGGACATCGAGGAGGTGGGCTACAACCGCG
CCACCGGCTTCGTGTGGCTGCGCCAGAAGAAGGCGCTCACGCACACCTTCAAGCAGATCGGGCGGCAGGTCTCGTACGGC
ACCGAGGTGACGGCCTTCGTCGAGGACCGCAAGATGAAGCGCATGACCGGGGTCAAGAGCAAGGAGCTCCTCATCTGGAT
CACCCTCTGCGACATGTACATCGACAAGGATGACCCCTCCAAGATCACCTTCAAGACGGCCACCGGG-CTCGGCAGGACC
TTCCCCGTCTCCGCCTTCGGGAAAGAGGAC--------------------------------------------------
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>chr3A_696
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-------------------------------------------------------------------CAAGGAGTCCATC
AACCAGACGCCG--CCGACTGCGTGCGTCGGAGAGCCG--GAGACCCAACCGTCTTCCTCCCCACGCATTAATAAGCCCT
CGCCTTAAATCGCCCCTCCCAACCGTCTTCCTCCCCAGCTTTC-CGACGGCATCCATCCCGGAACGGAAAACACCAACCT
GCTTTCCACCTATAAAATCCGCCCTTCCCCA-CCCCA-AATCCCACAACAGCAAACCAAATCCCC-AAGACCAAAAAAGG
CCCCAGCAACCCGAGCGCGTCGACCCCATCCACAACAGTTGAATCTGAGTTTACTTCCAGGAAAGATTTG---------A
GTCGAGATGGCGCAGGCGATCGAGGCTCAGAGGGAGGGCGCGGAGGTGTACCACGGCGCGGCGCTGTGCGCGGAGAAGGC
GGTGGAGCTGCTGGCGGAGACCAACATGCCGCTGGGCCTGCTGCCGCTGGCGGATATCGAGGAGGTGGGCTACAACCGCG
CCACCGGCTTCGTCTGGCTGCGCCAGAAGAAGGCGCTCACGCACACCTTCAAGCAGATCGGGCGGCAGGTCTCGTACGGC
ACCGAGGTGACGGCCTTCGTCGAGGACCGCAAGATGAAGCGCATGACCGGGGTCAAGAGCAAGGAGCTCCTCATCTGGAT
CACCCTCTGCGACATGTACATCGACAAGGACGACCCCTCCAAGATCACCTTCAAGACGCCCACCGGG-CTCGGGAGGACC
TTCCCCGTCTCCGCCTTCGAGAAGGAGGACTGCGGCAAGGCCAAGGCCGCAGCCGGCGGCGGCAAGGAGGCCCTCGTGGC
CAAGTAAGTGACGACGGCCGGCATACT--ACAGAGCTTGGATGAAAAGTACTCAAAAGTCCAACGTTA-----ACTAC--
---------GACTACTATTTGCTTTCACCTGTTTTAATAAACTACAGTGCTATAT----------ATACTCTGCTCCGGT
GTTCTGCCGAGGGTTGTATCGTTCATATGATCGTGCGATGA-TATGATCTTATAGTACTATACTGTGTGCTGTTCGCTGC
ATAAT-GGTGTGAACCTTTT--TGTGGCAGTGTCACGAGGTGTACGTGACTACGTGTTCTCCGA----TTTTATTTTAGG
CATGAAAAGCTTCTCTCCTTC----TGCACAGACAAAGGGACGATTCTGGTCTCCTGCTATTTAATTCAAGTCACGTATA
GCTAGATGACTATAGCTGTCAACCAATTT---------------------------------------------------
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>chr3B_730
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-----------------------TGCGTCGAAGA-CCG--GAGACCCAACCAGTTTCCTCCCCACGCATTAATAAACCCT
GGCCTTAAATCCCCTTTCCCAACCGTCTTCCTCCCCAGCTAGGACGACGGTATCCATCCCGGAACGGAAAGCGCCAGA--
----TCCAGCTATAAAATCCGCCCCTCCCCA-CCCA-CAATTCCACAACAGCAAACCAAATCCCCCAAGACCGAAAAAGG
CACCAGCAACTCCAGCGCGTAG--------------AGTTGAATCTGAGCTTACTTTGAGAGATTTGATTGATTCAATCA
GTCGAGATGGCGCAGGCGATCGAGGCTCAGAGGGAGGGTGCGGAGGTGTACCACGGCGCGGTGCTGTGCGCGGAGAAGGC
GTTGGAGCTGCTGGCCGAGACCAACATGCCGCTGGGCCTGCTGCCGCTGGCGGACATCGAGGAGGTCGGCTACAACCGCG
CCACCGGCTTCGTCTGGCTGCGCCAGAAGAAGGCGCTCACGCACACCTTCAAGCAGATCGGGAGGCAGGTCTCGTACGCC
ACTGAGGTGACGGCCTTCGTCGAGGACCGCAAGATGAAGCGCATGACCGGGGTCAAGAGCAAGGAGCTCCTCATCTGGAT
CACCCTCTGCGACATGTACATCGACAAGGGCGACCCCTCCAAGATCACCTTCAAGACCCCCACCGGGGCTGGGGAGGACC
TTCCCTGTCTCCGCCTTCGGGAAAGAGGAC--------------------------------------------------
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>SNPs
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
-----------------------------S---------S-----S-------------------SS-------------
S-------------------------------------------------------------------------------
------------SS---------------------------S-------------------------------------S
------------------------------------------------S-------------------------------
-------------------------------S------------------------------------------------
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-----------S-----------------------------S--------------------------------------
----------------------------------------------------------S---------------------
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--------------------------------------S---S------S----------S-S------------S----
-----------S-----------S-S----------------S---S-----------S---------------------
-------------------------S----------S-------------------------------------------
-----S--------------------------------------------------------------------------
------------------------S--------S----------------------------------------------
-------S-------------------------------SSS---------SS------S--------------------
-------------------------S---------------------------------------------S-------S
SSSSS-SS-SSS-S-SSS-SS--SSSS-SS--S-----------------------------------------------
-----------------------------S-------------S---S----------------------------S---
------------SS-SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
>forward_377
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-------------------------------------GGATGGAAGGAGAGGGAGGT-----------------------
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>reverse_2109
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----------------------------ACGAGCTAACGGCAACTTCA--------------------------------
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