>input_sequence_81900
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--------------------------------------------------------------------------ATGGCC
CGGATCGGCGTCGCCCTGCTCGCGCTCCTGGTGGCCGCCGCGGCGGTGGCGTGCCTGCCGGCCCCGGCCTCCGCGGGCGA
GCAGGACTCCATGCTGCTGACGCGCGCGGCGACCTGCGACGGCGCCGTCGGGGAGTGCGGCGTGGACGAGGACGAGGAGA
TGGGCACGGGCGCCTACGGCA---------CCGGCGAGGCCCTGCGCCGGTCGCTGGCGCGCAAGCCGACGGCCAGGTAC
ATCAGCTACGCGGCCCTGCGCGCCGACCAGGTCCCCTGCAACAAGCGCGACAAGTCCTACTACACCAACTGCGGCTCGAT
GCAGCAGGCCAACCCCTACACGCGCGGCTGCTCCGCCATCACGCGCTGCGCGCGCAACATGAACTGA-------------
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>chr3A_1_TraesCS3A01G313800
TGTAGATTCCCTTCTTTATAACTGACCTTGTGTAACCCTAAATCCTTCCGGTGTCTATATAAACCGGAGGACTTAGTTTG
GATAAGGGAGATTCATTATCATAGCCATACAAGTTAGACCTTTAGGGTTTAGCCATTACGATCTCGAGGTAGATCAACTC
TTGTAATACTCATATTCATCAATATCAATCAAGCAGGATGTAGGTATTGCCTCCATAGAGAGGGCCCGAACCTGGATAAA
CATCGTGCCCCTTGTCTCATGTTACCATCGATCTTAGACGCACAGTTCGGGACCCCTACCCGAGATTCGCCGGTTTTGAC
ACCAACAGTGGGCGATATAAACTCAAAAAATCGTGGAAGATACGACACTGTCATCAAGGAGATTCAGTAGAGGGTTCATC
ATGTTAGATGTAATTTTACTTTTGAAAGTCATGACTCGAATGTAGAGGCTCATAGTTAGCAAAATTTGCTCTTTCGTTAA
GCCCGGAACGCTATGTGTGGCTGGGCCATCCCCATGATCCGAGATGTATTTCATAAACTGTGGCTTTTGATCTTTATTAA
AGCTCGGATTGCCCCTAGAAAAACTTAATTCGCCAGAGTTGCCTAAAAAAAACTTAATTCGACAGAGTTATCTTAGAAAA
AAAAACTTAATTCGTCGGAGGAGCAAAGAAACGTGGAATGAGCCCATGCGTGTACGTGCCAGTTGGTCTTCTTCAAAGCT
AAAATTAGGCCAGCGCAAGAAACCAGTTGCACCGTCAGTTGATCCCTCGCAGGTGCT----GGGGCAA--------GAGG
CCGCAACGCGCGGTGGCACCGGCCAATCCGACGTGCGGCCGCCCTGCTTCCTCTCCCGTCCAGCTCCTCCCATTCCAAAT
CCCCTTTCCCCCGCGTCTCCTCTCCACCTC--CCTCCTCCCATCCCCTTCAAAGAGAGATGAAGGCATGGAGGGATCCAC
CCTAGCCGCAGACCGACAGACCC-----------------CAAGCAACCCGCAACCAGACTGAAGA---CCGACATGGCC
CGGATCGGCGTCGCCCTGCTCGCGCTCCTGGTGGCCGCCGCGGCGGTGGCGTGCCTGCCGGCCCCGGCCTCCGCGGGCGA
GCAGGACTCCATGCTGCTGACGCGCGCGGCGACCTGCGACGGCGCCGTCGGGGAGTGCGGCGTGGACGAGGACGAGGAGA
TGGGCACGGGCGCCTACGGCA---------CCGGCGAGGCCCTGCGCCGGTCGCTGGCGCGCAAGCCGACGGCCAGGTAC
ATCAGCTACGCGGCCCTGCGCGCCGACCAGGTCCCCTGCAACAAGCGCGACAAGTCCTACTACACCAACTGCGGCTCGAT
GCAGCAGGCCAACCCCTACACGCGCGGCTGCTCCGCCATCACGCGCTGCGCGCGCAACATGAACTGATT-CGTCCTCCGT
ATGCCCGCCTCTGCTGCCCCGTCGATCTCGCGCGCGTACGGAG-----------------------CGGAGAGGAG-TGT
CACCGTGTGAGCGCCTAATTAAGCACTGTGTGCGTTT-GTGCTGCTTCAACATTGATCCAACAAAATTAACGACTGTTAT
TGTATTTGTTTGTGAGTAGATTTTG----TGTATCCAACGTGTTCCTGCTACTGCCATGTGTACGCCAATTTATTCGTTT
TG-AAAAATGTTTGTGTATTTGAAGAAGAACAGGATTTTTATTTTATTTTCCGCCTCTATTTTGATATGCTTGTAATTTT
CATGAACGGGGTTGTCATGTTGAAAGACAAGTTAGAATTTGTGGATGTATTCTACTTACTCGATTTAATTATTAAAATTC
AGTATACAACGACATAA---------------------------------CATGGTTACAGTTTTCTTATAG--------
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-----------ATATAGTAATAGTTTAATGTACACAACTATTTGGAAAGCCCATTCCCACCATGGTCACGGCCCAACACA
CTTGCCAGAGGCAGTGTGCATTCTCCCGTTTCCTTGGTTATAAGAAGTGACACGGACATAGATGATATCATCACGACCTC
TTAATTTAGGTGGGTTTTTACACAAGGGTACTTGTGTTCCGGGCAAGCCCAACTACAAACAAAAGAAAATGTCTGTTTTC
TACCCAAACCAAATAAAATCGGCTGTATCCACTCAGATGGAAGAATCCGAAGTTGGTCCCATAACCAACAAAGGCTACAT
----AGGACGCATCCACGTATTAAGAAAAGAATGTTACTAATAAAGAAGAAACTAATAAGATAAGTGCGGAAAAAGATAA
ATGAAACCATAACTAATAATGGAATATTCGATTTGATAACCCATGCTTGGGTTGTGTGGGAGACCACACGGT--CAGATT
GTTGTTGGTGAGGTTCTTGCCTTTCAGAAAAAGTGTGAAGAAAAACCTGCATTTGGCCTGCACCTTAGCCTTCCAGATCT
TCTTGCAATTTGCATGAGATGTTAATCTGAGGAACT
>chr3D_579
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------------------AAAAACTTAATTGGACAGAGTTGCCT-AAAAAAACTTAATTCGACAGAGTTGTCTTAAG---
-AAAACTTAATTCGTCAGAGGAGGAAAGAAACGTGGAATGAGCCCATGCGTCTACGTGCCAATTGATCTTCTTCAAAGCT
AAAATTAGGCTAGCACAAGT------TTGCACCGTCAGTTGATCCCTCCCTCGCAGGTGCCGGGGCAA--------GAGG
CCGCAACGCGCGGCGGCACCGGCCAATCCGACGTGCGGCCGCCCTGCTTCCTCTCCCGTCCAGCTCCTCCCTTTCCAAAT
CCCCATTCCCCCGCGTCTCCTCTCCACCTCTCCCTCCTCCCATCCCCTTCAAAGAGAGAGGAAGGCATGGAGGGATCCAC
CCTAGCCGCAGACCGACAAACCG-----------------CAAGAAACCAGCAACCAGACTGAAGA---CCCACATGGCC
CGGATCGGCGTCGCGGTGCTCGCGCTCCTGGTGGCCGCCGCGGCGGTGGCCTGCCTGCCGGCCCCGGCCTCCGCGGGCGA
GCAGGACTCCATGCTGCTGACGCGCTCGGCGACCTGCGACGGGGCCGTCGGGGAGTGCGGCGTGGACGAGGACGAGGAGA
TGGGGACGGGCGCCAACGGCA---------CCGGCGAGGCCCTGCGCCGGTCGCTGGCGCGGAAGCCGACGGCCAGGTAC
ATCAGCTACGCCGCTCTGCGCGCCGACCAGGTCCCCTGCAACAAGCGCGACAAGTCCTACTACACCAACTGTGGCTCGAT
GCAGCAGGCCAACCCCTACACGCGCGGCTGCTCCGCCATCACGCGCTGCGCGCGCAACATGAACTGATTTCGTCGTCCGG
A-------------TGCCTCGTCGATCTCGCGCACGGACGGCAATCATCGATACGTGCGTACGGAACGGGGAGGAGATGT
GACCGTGTGAGCGCCTAATTAAGCACTGTATGCGTTTTGTGCTGCTTCAACATTGATCCAACAAAATTAACGACTGTTAT
TGTT----TTCGTGAGTAGCTTCTATCTATGTACCCACCGTGTTCCTTCTATTGCCACG------CCAATTTATTCCTTT
TGAAAAAATGTTTGTATATTTGAAGAAGAACAGAGTTTTTTTTTT------CGCCTCTATTTTCATATGCTTGTAATTTT
CATAAACGGGGTTGTCATGTTGAAGAACGAGTTAGAATTTGTGGATGTATTCTATTTACTCGATTTAATTATTAAAATTC
AGTACACGGCGACATAACTTTATGAAAACCCTGTTTGTGGTCATTCTCATCATGGTTACCATTTTCTTATACAATTTTTT
GGCGATTTCTATTTGGCGCTTCACGCGCTTATTACAGCACATTCTGCAAACAGGCACGAAAGCGCACACTCCCTCCCGCG
AGCTGGGCCGTCCAGTTTCATTTTTTTCTTCTCTATTTTCTAAACTGAGAAAAAAAAGTGCGCAAAACGTTATTCGAACC
CATTACGTGCGAGTTGGGTGTAAGATGCGATAAGCACCCGGCCACCTCACCTTGATGTGATTGTGATTACATAGATGTTT
TTCCACATTTCTTATTTCTTCTCTTTTTTTCCGTCCCTTTCTCTTTTTTCTTAGTCCCTTTTTCTAATTCGCAAACTTTT
TCTGCAAACAGATGAACTTTTTTATTTATTTTTAATTGCATGATTTTTTCAATTCGATGAAAATTTTCAAGTTTGATGTT
TTTTCCAAATTTGACGATTTTTTTAAAATTCAATGATTTTTTCAAATCCGATATTTTTTTTTCCAAATTTGATGTTTTTT
TTCAAATTGGATGAACTTTTTTTCGAAATTGATGAACTTTTTTCAAATTTATGAACTATTTGAAAACCAATGAACTGTTT
TTCAAATTCAATGAACCTTTTTCAAAATTCATGTTTTTTCAAAATTCAATGTACCTTTTCCATAATTGATGAACTTTTTT
CAAAGTGGACTAATATTTTTTCAAGATCGACGAACTTTTTTCATTTTTCCCGGTCCTATTCTATTTTTTTACTTTTTTGT
CCAAAACTCATTTTTTAAATAATTTTTAAATTTATTTTCAAATAATTAATACTGAGTATATAATATATATCTAGTCAAAT
AGCTCTCGTTGCTAACAGGGGACAAGGTATGGCGCTCAGTCTTTTGGTTATGGTGCCAGGTTATTGTTGGTTCCGTGAAG
AGTCCGAATCTCGGTTCTTGCACACCCCGAGTATAAGTTTTGTGCAGTTTATTCTTCAGAATGTTGTTGGGCTGGCCCGC
CACGTTTCCTTGCGAGCGCTGTCAGCGGGAAACAGTGCTTACAACGCCGAATAGGACTCCTGATTTTTTTTATGGAAACC
TTGTTCTTATAATATAGTAACAATTTACTGTACACGGCTATTTGGGAAGCCCATTCCCATCATGTTTATGGCTCAACATG
CTTGCTCGAGGTAGTGTGCATTCTTCTGTTTTCTTGGTCATGAGGAGTGAC-CGAACATAGATGGTATCATCACGACCTC
CTAATCCTGGTGGGTTCTTACATAAGGGTACTTGCGTTTCAGGCAACCCCATTTACAAAG-AAACAAAATATCGGTTTTC
TACCCAAACCAAATAAGATCGGGTGTATCCACTCAGATGGAAGAATCCCAAGTTGCTGCCATAACAAAACAAAGCCTCAA
CCGAAGGGCGCATCCACAGATTAACAAAAGAATGTTACAAATAAAGAAGAAACTAATAAGATAAGTGCAAAAAAAA----
--GAAACCATAACTAATAATGGAATATTCAATTTAATAACCCACACTTGGGTTGTGTGGGAGACCACGCTTGGCCAGATT
GTCGTTGGTGAGGATTTTGCCTTTCAGAAAAAGTCTGAAGAAAAACCTGCATTTGGCCTGTACCTTATCCTTCCAGATCT
TCTTCTAGTTTGCATGAGAGGTTTACCCGAGGAACT
>chr3B_669
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----------------------------AAACGTGAAATGAGCCCATTCGTGTACGTGCCAGTTGATCTTCCTTGAAGCT
AAAATTAGGCTTGCGCG-----CCAGTTGCAGAAATGCCGCGTACGATGGTTCCGATCGGGCCGGGCGCCGTGGCCGAGG
CCGCAACGCGCGGCGGCACCGGCCAAGCCGACGTGCGGCCGCCCTCATTCCTCTCCCGTCCAGCTCCTCCCATTCCAAAT
CCCCTTTCCCCCGCGTCTCCTCTTCATCTCTCCCTCCTCCCATCCCCTTCAAAGAGAGAAGAAGGCATGGAGGGATCCAC
CCTAGCCGCAGACCGACAAACCG-----------------CAAGAAACCAGCAACCAGACTGAAGA---CCGACATGGCC
CGGATCGGCGTTGCAGTGCTCGCCCTCCTGGTGGCCGCCGCGGCGGTCGCCTGCCTGCCGGCCCCGGCCTCCGCCGGCGA
GCAGGACTCCATACTGCTGTCGCGCGCGGCGACCTGCGACGGGGCCGTCGGGGAGTGCGGCGTGGACGAGGACGAGGAGA
TGGGGACGGGCGCCTACGGCA---------CAGGCGAGGCCCTGCGCCGGTCGCTGGCGCGGAAGCCGACGGCCAGGTAC
ATCAGCTACGCGGCGCTGCGCGCCGACCAGGTCCCCTGCAACAAGCGCGACAAGTCCTACTACACCAACTGCGGCTCGAT
GCAGCAGGCCAACCCCTACACGCGCGGCTGCTCCGCCATCACGCGCTGCGCGCGCAACATGAACTGATT-CGTCGTCCGT
ATGCCCGCCTCTGCTGCCTCGTCGATCTCGCGCACGTACGGCAATCATCGATACGTGCGTAC-GAACGGAGAGGAGACGT
GACCGTGTGAGCGCCTAATTAAGCACTGTATGCGTTT-GTGCTGCTTCAACATTGATCCAACAAAATCAACGACTGTTAT
TGTT----TTCGTGAGTAGCTTCTATCTATGTATCCACCGTGTTCCTGCTATTGCCATG------CCAATTTATTCCTTC
TG-AAAAATGTTTGTATATTTGAAGAAGAACAGAGTTTTTTTT-----TTCCGCCTCTATTTTGATATGCTTGTAATTTT
CATAAACG------------------------------------------------------------------------
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>chr2A_785
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----------------------------------------------------------------------------GAGG
CCGCAACGCGCGGCGGCACTGGCCAAGCCGACGTGCGGCCGCC--------------------CTGCTCCCTCTCC-AAA
CCCACTTCCCCCGCATCTCCCCTCCATCCCCCCCTCCTCCCACTCCCTTCAAAGAGAGAAGAAAGCTGGGAGAGATCCAC
CCTAGCTGCAGACCGACAAAGCGACCGCGACTCAAACCCGCAAGAAACCAGCTACCGGACAGAAGAAGACTGGCATGGCA
AGGCTCGGCGTGGCCTTGCTCGCGCTCCTGGCGGCCGCGGCGGCGGTCGCCTGCCTGCCGTCCCCGGCCTCCGCGGGCGA
GCTGGCCTCCATGCTGCTGTCGCGCGCGGCGGCCTGCGACGGGATCATCGGGGAGTGCGGCGTGGACGAGGACGAGGAGA
TGGCGCCG---------GGCG---------CCGGCGAGGCCCTGCGCCGGTCGCTGGCGCGGAAGTCGACGGCCAGGTAC
ATCAGCTACGCGGCGCTGCGCGCCGACCAGATCCCCTGCGACAAGCGCGGGGCGTCCTACTACATCAACTGCGGGTCCAT
GCAGCAGGCCAACCCCTACACGCGCGGCTGCTCCGCCATCACGCACTGCGCGCGCAACATGAACTGATC-CCTCGTCCGT
AGGCC---------------------------------------------------------------------------
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>chr2D_844
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--------------------------------------CCGTC--------------------CTGCTCCCTCTCC-AAA
CCCCCTTCCCCCGCATCTCCTCTCCATCTCCCCCTCCTCCCACTCCCTTCAAAGAGAGAAGAAGGCAGGGAGGGATCTAC
CCTAGCTTCAGACCGACAAACCGAC--CGACTCAAACCCGCAAGAAACCAGCTACCGGACAGAAGA---CTGACATGGCA
AGGCTCGGCGTGGCCTTGCTCGCGCTCCTGGCGGCCGCCGCGGCGGTCGCCTGCCTGCCGTCCCCGGCCTCCGCGGGCGA
GCTGGCCTCCATGCTGCTGTCGCGCGCGGCGGCCTGCGACGGGGTCATCGGGGAGTGCGGCGTGGACGAGGACGAGGAGA
TGGTGACG---------GGCG---------CCGGTGAGGCCCTGCGCCGGTCGCTGGTGCGGAAGTCGACGGCCAGGTAC
ATCAGCTACGCGGCGCTGCGCGCCGACCAGATCCCCTGCGACAAGCGCGGGGCGTCCTACTACATCAACTGCGGGTCCAT
GCAGCAGGCCAACCCCTACACGCGCGGCTGCTCCGCCATCACGCACTGCGCGCGCAACATGAACTGATC-CGTCGTCCGT
AGGCC---------------------------------------------------------------------------
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>chr2B_852
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---------------------------------------------------------------CTGCTCCCTCTCC-AAA
CCCCCTTCACCCGCATCTCCTCTCCATCTCCCCCTCCTCCCACTCCCTTCAAAGAGAGAAGAAAGCAGGGAGAGATCCAC
C-TAGGTGCATACCGACAAACCGAC--CGACTCAAACCCGCAAGAAACCAGCCACCGGACGGAAGA---CTGACATGGCA
AGGCTCGGCGTGGCCTTGCTCGCGCTCCTGGCGGCCGCGGCGGCGGTCGCCAGCCTGCCGTCCCCGGCCTCCGCGGGCGA
GCTGGCCTCCATGCTGCTGTCGCGCGCGGCGGCCTGCGACGGGGTCATCGGGGAGTGCGGCGTGGACGAGGACGAGGAGA
TGGTGACG---------GGCGCCGGCGGCGCCGGTGAGGCACTGCGCCGGTCGCTGGTGCGGAAGTCGACGGCCAGGTAC
ATCAGCTACGCGGCGCTGCGCGCCGACCAGATCCCCTGCGACAAGCGCGGGGCGTCCTACTACATCAACTGCGGGTCCAT
GCAGCAGGCCAACCCCTACACGCGTGGCTGCTCCGCCATCACGCACTGCGCGCGCAACATGAACTGATT-CGTCGTCCCT
AGGCC---------------------------------------------------------------------------
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>SNPs
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSS------------S-S-----------S------------------------S-----SSSSS
S---------------S------S-----------------------------------------S--------------
----------S--------SSS----------------------------SS-S-S------------------------
-------------S------------------------------------------------------------------
-----------------------------------------------------------S--------------------
------------------S---S---------------------S----S------------------------------
---------------S----------------------------------S-----------------------------
------------------------------------------S-------------------------------------
----S--------------------------------------------------------S------------------
--------------S-----------------------------------------------------------------
--------------------------------------------------------------------------S-----
------------------S--------------S-------SS-------------------------------------
S----------------------------S--------------------------------------------------
---SSSSS--S--------S--S-S------------S-------------S-------SSSSSS-----------S---
---------------S-----------------SS-----S----SSS--------------------------------
---S--------------------SS--S-------------------------S-------------------------
----S--SS--------------------------------------------------SS----------S--------
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--------------------S-S----S-------SS--------S-------------S----S-S-S---S-----SS
-----SS----S------------S-S----S------S--S--S------S--S---------S---------------
S----SSS--------S-----S-----------S---S-S-----S----SS------SS---S-----S--S------
----------------S-----S-------------------------S------S-S-------S--SS--S--SS--S
-------S---------SS-----S-------------S-----------------------------SS-----SSSSS
SS---------------------------S----S--------SS----------------------S-SSS--------
--S----------S-S------------------S-------------------------S------S------------
----SS-S-----------S---S-S-S--------
>forward_242
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--------------------------------------------------------------GGCCCGAACCTGGATAAA
CA------------------------------------------------------------------------------
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>reverse_3047
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------AGAGGCAGTGTGCATTCTCC------------------------------------------------------
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