>input_sequence_62406
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----------------------------ATGGCGGGCAATGGCATTAGCGCGGCGGCGAGCGGCAATGGCAAAGCCAAGG
TGGTTATTGTGATGGGCGCCACGGCCACCGGCAAGTCCAAGCTGGCCGTCGCCCTCGCGCTGCGGTTCGACGGCGAGGTC
GTCAACTCGGACAAGATCCAGGTCCACGACGGCCTCGCCGTGGTCACCAACAAGGCCACCGCCCGCGAGCAAGCCGGGGT
GCCGCACCACCTGATCGGCGGGGTGCACCCCGACGCCGACTACGCCGCTGCGGACTTCCGGCGCGACGCCACGCGCGCCG
TGGAGTCGATCCTCTCGAGGGGCCGCCTGCCGATCATCGCCGGCGGGTCCAACAGCTACCTCGAGGCGCTGCTGGACGGC
GAGCCGGGATTCCGCCGGCGGTACGAATGTTGCTTCCTCTGGGTGGACGCCGACACGTCGGTGCTGGAACGGTACGTCGG
CGACCGCGTCGACTGCATGGTGGAGCAAGGGCTCGTCGGCGAGGTGCGGGAGTTTTTCCGGACGGACGCGGGCTACTCCC
GTGGGATCAGGAGGGCCATAGGCGTGCCGGAGATGGACACCTACTTCCGGATGGAGGCCGCCGGTGCGCTGGACGGAGAC
GACGAACTACGGGCCGGGCTCCTCGAGGCCGCTGTCGAACAGATCAAGGAGAACACATGCAGGCTGGTGTGCAGTCAGCT
CCGGAAGATCCACCGGCTACGATGCCTGCCTGGGTGGAGCATCCGCCGCCTTGATGTCACCAGGGTGCTTTCGCTCAAGG
TCGGGAAGGCCAAGGACGAGGAAGCGGAGCGCACCCTGTGGGAGTCGGATGTCGTCGGGCCTGCCGCGCGCGTCGTTGAG
ACGTTTCTTCACTCTCTTGGAGGGATGGTGGCCGAGGTGAGTAGGGATGGGAAGGAGCAAAGCACGGTGGCGAAGCATGC
AGCCGTCGTCGCCGGGATCGTCGAAGCGGCCGAGAGGTGCGGTCTGCAGCTACTCGAGACTGGGCCG---TCCCGTGGGA
TCCATCCAAGGAAAGCGGCATCAGCAGTTTGA------------------------------------------------
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>chr3B_1_TraesCS3B01G154100
CAATCTTCCTCCTCAAGCGAGCGCGGTCTAACTCCGTGCCGGTAACGGTA------------------------------
---------ACCGTACTCGGTCTCTTCACCCTGCCA------CAAATTACTGTAGTAATATTTATTCTTTTCTCCGCGAG
AATCGATCAAGTTTCCCCGGAAGGAGCAGCTCAGTAAGTTCGCACGTTCAGACTCACCGACTCGATCGGGAAACAGACGC
ATACACA----------------------TGCAGTTGACACATCCCCACATTGAATTAATCAAATTCAATGCCGGTCAAC
TCGTGACTTTGAACGGAAATACTATGAATGAACGAATATTACTTGTGTTCATAAGGTGGAAGTACTATTAACTTTTGGCT
AATTCTCAGTCCCTA-------------------------------AAATTTGCATAAGACTAAACTCCCCTGAGATTAC
ACTAGCGAGGTAAAGGTGTGAGTTGGTGAAACATTGAGACAAAGAGCTGGGACTGGAATTT------AAGGAGATATCAG
ATCAATTTTGTTTTGCGAATTGCCATAAAAAAAAT-CATCAGATTACTTTCTGAATCGGGATGCATGAGTGC--------
-TGATGCCGGTTTGTAGTATTTGGAGGAGTGGCTTAATTGCCAGTTGTATTCTGACTGGCAGCGCAATGCAGCTACATGT
CCGTTTCCCGTGATCTTGACATGGAGCCTGAGAGTGAGAGAGACTGTTCTTTTCCCAAACCACCGAAC------------
GCTAAACAAAATGGAGCGAACTA------AAGGTGACGCGACCACCGGAATTTTATGTTTTTTTGAAAGTTGACCGTGGG
ACAACTAAGCAAAAGAGTACGTAGGCATGCGCGTTA-ACACAGCTAAGGTTCAAGACAGTGACGGTCTCCTC----CCTT
CCAAGAACCACACCGCAAAC-AACAAAA-TCTACGTGCAGGCTAGTA---GTATAAATAGAGAGCCATCTCCCGCTAGTT
TCATGCACCGATCGATCTCGTCGGAAATCGTAAGTTCTTCTCGAGCCTGCACGCAGCGACCAAACAGACGACACG-----
-ACTTCTTTCTCGTGCATGCACATGGCGATGGCGGGCAATGGCATTAGCGCGGCGGCGAGCGGCAATGGCAAAGCCAAGG
TGGTTATTGTGATGGGCGCCACGGCCACCGGCAAGTCCAAGCTGGCCGTCGCCCTCGCGCTGCGGTTCGACGGCGAGGTC
GTCAACTCGGACAAGATCCAGGTCCACGACGGCCTCGCCGTGGTCACCAACAAGGCCACCGCCCGCGAGCAAGCCGGGGT
GCCGCACCACCTGATCGGCGGGGTGCACCCCGACGCCGACTACGCCGCTGCGGACTTCCGGCGCGACGCCACGCGCGCCG
TGGAGTCGATCCTCTCGAGGGGCCGCCTGCCGATCATCGCCGGCGGGTCCAACAGCTACCTCGAGGCGCTGCTGGACGGC
GAGCCGGGATTCCGCCGGCGGTACGAATGTTGCTTCCTCTGGGTGGACGCCGACACGTCGGTGCTGGAACGGTACGTCGG
CGACCGCGTCGACTGCATGGTGGAGCAAGGGCTCGTCGGCGAGGTGCGGGAGTTTTTCCGGACGGACGCGGGCTACTCCC
GTGGGATCAGGAGGGCCATAGGCGTGCCGGAGATGGACACCTACTTCCGGATGGAGGCCGCCGGTGCGCTGGACGGAGAC
GACGAACTACGGGCCGGGCTCCTCGAGGCCGCTGTCGAACAGATCAAGGAGAACACATGCAGGCTGGTGTGCAGTCAGCT
CCGGAAGATCCACCGGCTACGATGCCTGCCTGGGTGGAGCATCCGCCGCCTTGATGTCACCAGGGTGCTTTCGCTCAAGG
TCGGGAAGGCCAAGGACGAGGAAGCGGAGCGCACCCTGTGGGAGTCGGATGTCGTCGGGCCTGCCGCGCGCGTCGTTGAG
ACGTTTCTTCACTCTCTTGGAGGGATGGTGGCCGAGGTGAGTAGGGATGGGAAGGAGCAAAGCACGGTGGCGAAGCATGC
AGCCGTCGTCGCCGGGATCGTCGAAGCGGCCGAGAGGTGCGGTCTGCAGCTACTCGAGACTGGGCCG---TCCCGTGGGA
TCCATCCAAGGAAAGCGGCATCAGCAGTTTGAGTTTGGAGCTTCTCATCAAATTAACCATACAAAACTTCAAAAACAAAT
CAAATTAACCATACCACATTCTTTTTTAGGGAAACCATACCACATATTTGGTACTACTATTAGCTTGCGATCTCTAATCA
ATTGTTTTATTTTTTATTTAATCTATACAGTTGTGTTCTTTGATCCATTATTAATAAGTTAAAGAAAAGCCTAGTGCATT
GTATATTGCACTCTAAACTACACCCTCTGTTTTTAAATATAAGGTGTTTTGGCAGTT-TAAACTAAAACGCCAAAACGTC
CTACATTTAAGAAAGGAGATAGTAGATGTGATACCCCACGACGTTGATGTACAAATTATTTGCAATATATTTCAATGGTT
GTATAATATGAACATTTGGATTAATAATATGCGAAGACTTTTCTAATGCATGGTTGAATGTTGAGAGGAATATATTAGTA
GGACCATCTATTTAGATATAGGTATAGGATATGCTTAGATACATATCATCTAGTGGTTTGGATCTTAATATGCATTTGCC
ACACTGGTAGT--------GATGCTTTTTGGACGAAGGGTCCACGGAGGAGCAATCCAACCTATTCCATCATGACTTACG
TCCGT-GAAGGACTAGTCTCATTAGGGTAGATCTTCACAAAGTAGGTGATCTCCGAACCCATATAGACGTTTTGCCTTCT
TCACAAACTTGAAGACCTCCAAGCACACCCTTCAAAAGTAACAAGATGGATGTTGCTTAGGTAATGAATCCCTTGCTCTT
GTGCTTCAAAAGATAATCTTCTCAGCAGTTAAACTTCCTCAAGATTTTGACTGTCTATTGGGAGATGTTGGACTGAAAAG
CAAGAGGGGATTAAATCTCAAGTGGTTTGATTGGATGGTTGGACTACAAAGCCTTTTGAAATCAGTATTAGAAGGTGGAG
TTCTCTCTTGGAACATATGATGGGAGTGAATTTTGCTTCGAGTTAGACTAGTGGGATAAGTGGGGTATATATAGGGTGGA
CT
>chr3D_6
-----TTCCTCCTCAAGCGAGCGCGGTCTAACTCCGTGACGGTGAAGTA-------------------------------
---------ACGGTGCTCGGTCTCTTCACCCTGCCT------CAAATTACTGTAGTAACTTTCC-TCTTTTCTCCGCGAG
AATCGATCAAGTTTCCCCGGAAGGAGCAGCTCAGTAAGTTCGCACGTTCAGACTCACCGACTCGATCGGGAAAAAGACAC
ATACACA----------------------TGCAGTTGACACATCCCCACGTTGAATAAATCAAATTCAATGCCGGTCAAC
TCGTGACTTTGAACGGTAATACTATGAATGAACGAATATTATTTGTGTTCATAAGGTGGGAGTACTATTAACTTTTGGCT
AATTCTCAGTCGCCTCTGA--AACTTTCTTGAAAACTTCAGTCCCTAAAATGGCGAAGAT--------------------
-------AGGTAAAGGTGTGATCTGGTGAAGCATTGAGACAAC-AGCTGGGACTGAAATTTAGTAAGAAGGAGAAATCAG
ATAAATTTTGTTTTGCGAATCGCGATTAAAAAGAT-CATCAGATTACTTTT-----------------GTGC--------
-TGATGCCGGTTTGAAGTATTTGCACGAGTGGCTTCATTGCCAGTTGTATTCTGACTGGCAGGGCAATGCAGGTACGTGT
CAGGTTCCGGTGATCTTGACATGGAGCCCGAGAG------AGACTCTTCTTTTTCCAATCCACCGAAC------------
GCGAAGCAAAATAGTAGAGCAGACTAGCCAAAGTGACGAGACCATCGGAATTTTATTTTTATTTGAAAGCTGACCATGGG
AAAACTAAGCACAAAAGTACGTAGGCATGCGCGTTA-ACACAGCTAAGGTTCACGACAGTGACGGTCTCCTTGCTTCCTT
CCAAGAACCACACCGCAAAAAAACAAAA-TCTACGTGCAGGCTAGTACTAGTATAAATAGAGAGCCATCTCCCGCTGGTT
TCATGCACCAATCCATCTCGTCGGAAATCGTAACATCTTCTCGAGCCTGCACGCAGCGACCAAACAGACGACACG-----
-GCTTCTTTCTCGTGCATGCACATGGCGATGGCGGGCAGTGGCATTAGCGCGGCAGCGAGCGGCAATGGCAAAGCCAAGG
TGGTCATTGTGATGGGCGCCACGGCCACCGGCAAGTCCAAGCTGGCCGTCGACCTCGCGCTGCGGTTCGGCGGCGAGGTC
GTCAACTCGGACAAGATCCAGGTCCACGACGGCCTGGACGTGGTCACCAACAAGGCCACCGCCCGCGAGCAGGCCGGGGT
GCCGCACCACCTGATCGGCGGGGTGCACCCCGACGCCGACTACGCCGCCGCGGACTTCCGGCGCGACGCCACCCGCGCCG
TGGAGTCAGTGCTCGCGAGGGGCCGCCTGCCGATCATCGCCGGCGGGTCCAACAGCTACCTCGAGGCGCTGCTGGACGGC
GAGCCGGGATTCCGCCGGCGGTACGAATGTTGCTTCCTGTGGGTGGACGCCGACACGGCGGTGCTGGAACGGTACGTCGG
CGACCGCGTCGACTGCATGGTGGAGCAAGGGCTCGTCGGCGAGGTGCGGGGATTTTATCGGACGGACGCGGACTACTCCC
GTGGGATCCGGAGGGCCATAGGCGTGCCGGAGATGGACACCTACTTCCGGATGGAGGCCGCCGGTGCGCTGGACGGAGAC
GACGGACGACGGGCCGGGCTCCTCGAGGCCGCCGTCGACGAGATAAGGGAGAACACGTGCAGGCTGGTGTGCAGTCAGCT
CCGGAAGATCCACCGGCTACGATGCCTGCCGGGGTGGAGCATCCGCCGCCTTGACGTCACCAGGGTGCTTTCGCTCAAGG
TCGGGAAGGTGAAGGACGAAGAAGCGGAGCGCACCCTGTGGGAGTCGGATGTCGTCGGGCCTGCCGCGCGCGTCGTTGAG
ACGTTTCTTTACTCTCTTGGAGGGATGGTGGCCGAGGTGAGTAAGGATGGGAAGGAGCAAAGCACGGGGGCGAAGCATGC
AGCCGTCGTCGCCGGGATCGTCGAAGCGGCCGAGAGGTGCGGTCTGCAGCTACTCGAGACTGGGCCG---TCTCGTGGGA
TTCATCCAAGGAAAGCGGCAGCAGCAGTTTGAGTTTCGAGCTTCTCATCAAATTAACCATACTAAACTTCAAAAACAAAT
CAAATTA--------------------------ACCATACCATATATTTAGTACTACTATTAGCTTGTGATCTCTAATCA
ATTGTTTTATTTTTTATTTAATCTATATAGTTGTGTTCTTTGATCCATTGTTAATAAGTTATAGAAAAGCCTAGTGCATT
GTATGTTGCACTCTAAACTACACCCTATGTTTCGAAATCTAAGGTGTTTGGGCAGTTTTAAACTAAAACGCCAAAACTTC
CTACATTTAGGAAAGAAGGCAGTAGATGTGATACCCCACGACGTTGTTGCACAAATTATTTGCAATATATTTCAATGGTT
GTATAATATGAACATTTAGATTAATAATATGTGAAGACTTTTCTAATACATGGTTGAATGTTGAGAGGAATATATTAGTA
GGGTCACATATTTAGATATAGGTATAGGATATGCTTAGATACATTTCATCTAGTGGTCTGGATCTTAATATGCATTTGCC
ACACTGGCAACGCTTGCCGGATGCTTTTTGAACGAAGGGTCCACGGAGGAGCGACCCAACCTATTCCATCATGACTTACG
CCCCGCGAAGGACTAATCACATTAGGGTAGATCTTCACGAAGTAGGTGTTCTC---------------------------
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>chr3A_7
TCT------TCCTCAAGCGAGCGCGGTCTAACTCCGTGACGGTGACGGTAAAAGCACGGTGCTCGGTCTCTTTTTTTTTT
TTGAGCATCACGGTGCTCGGTCTCTTCACCCCCTGCAACGTGCAAATTACTGCGGTGTCTTTCC-TCTTTTCTCCGCGAG
AATCGATCGAGTTTCCCTGGAAGAAGCAGTTCGGG--------ACGTTCAGACCCACCGACTCGATCGGGAAACAAACAC
GTACGTACACCGCGAGTAACTTCACATAGTGCAGTTGACACATCCCCGCATTGAATAAATCAAATTCAATACCGGTCAAC
TCGTGACTTTGACCAGTACTAATGTTTTTGAACGAATATTATCTGTGTTCATAACGTGGAGGCACTGTTAACCTTTGGCT
CATTCTCAGTCTCGCCCCGGTAACTTTTTTGAAAACTTCAGGTCCTAAAATTGCGTAAGGATAATAAA-CCTAAGATTAC
ACCGGCGAGGTAGTAATAAGGTAAATGC--------------------GTGACTCAAATTTAAGAAGAAGAA-AAATCAG
ATAGCTTTTGTTTTGCGAATTGTGATTAAAAAAAACCATCAGATAACTTTGTGAATCAGCATTCATGAGTATATATAGTA
GTGATGCCGGTT----GTATTTGCAGGAGTAGCTTAATTGCCAGTTGTGTTCTGACTGGCAGGGCAATGCAGGTACGTGT
CAGGTTCCTGTGATCTTGACATGGAACCCGAGAG------AGACCGTTCCTTTTCCAATCCACCGATGAAACGAAGAAAT
GCTAAACAAAATGCAGCAAGCTTGCC-----AGTGACGAGACCATCGGAATTTTAGTTTTTTTTTAAAGTTGACCGTGGG
--------------GAGAACGTAAGCATGCGCGTTGGACACAGCTAAGGTTCAGGACAGTGACGGTCTCCTC----CCTT
CCTAGAACCACACCGTCAAGAACCAAAATTCTACGTGCAGGCTAGTA------TAAATAGACGGCCATCTCCCGCTAGTT
TCATGCACCGATCGACCTCCTCGAAAATCGTAGGCTCTTCTCGAGC------GCAGCAGGCGAACAGACGCGACGACCTG
TACTTCTGACTTGTGCATGCATATGAGGGC------------CATTAGCGCGGCAGCGAGCGGCAATGGCAAAGCCAAGG
TGGTCATTGTGATGGGCGCCACGGCCACCGGCAAGTCCAAGCTGGCCGTGGACCTCGCGCTGCGGTTCGGCGGCGAGGTC
GTCAACTCGGACAAGATCCAGGTCCACGACGGCCTGCCCGTGGTCACCAACAAGGCCACCGTCCGCGAGCAAGCCGGGGT
GCCGCACCACATGATCGGCGGGGTGCACCCCAACGCCGACTACGCCGCGGCGGAGTTTCGGCGCGACGCCACGCGCGCCG
TGGAGTCGGTCCTCGCGAGGGGCCGCCTGCCCATCATCGCCGGCGGGTCCAACAGCTACCTCGAGGCGCTGCTGGACGGC
GAGCCGGGGTTCCGCCGGCGGTACGACTGCTGCTTCCTCTGGGTGGACGCCGACACGTCGGTGCTGGAGCGGTACGTCGG
CGACCGCGTCGACTGCATGGTGGAGCAAGGGCTCGTCGGCGAGGTGCGGGAGTTTTACCGGGCGGACGCGGACTACTCCC
GTGGGATCAGGAGGGCCATTGGCGTGCCGGAGATGGACACCTACTTCCGGCAGGAGGCGGCAGGGGCGCTGGAGGGAGAC
GAGGAACGACGGGCCGGGCTCCTTGAGGCCGCCGTCGGCGAGATCAAGGAGAACACATGCAGGCTGGTGTGCAGTCAGCT
CCGGAAGGTCCACCGCCTGCGATGCCTGCCTGGGTGGAGCATCCGCCGCCTCGATGTCACCAGGGTGCTTTCGCTCAAGG
TCGGGAAGGCGACGGACCAAGAGGCGGAGCGCACCCTGTGGGAGGCGGATGTCGTCGGGCCTGCCGCGTGCGTCGTTGAC
ATGTTTATTCGCTCTCCTGGAGGGATGGTGGCGGATGTGAGCACGGATGGGAAGGAGCTAAGCACGGGGGCCAAGCATGC
AGCC---GTCGCCGGAATCGTCGAAGCGGCCGACAGGTGTGGTCTGCAGCTACTCGAGACTGGGCCGACGTCTCGTGGGT
TTCATCCAAGGAAAGCGGCCGCAGCAGTTTGAGTTTCGAGACTCTCATCAACTTAACCGTACCACCCCT---AAAAAAAT
CAACTTA--------------------------ACCATACCA--------------------------------------
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>SNPs
SSSSS---------------------------------S----S------------------------------------
-----------S--S--------------------S----------------------SS--SSS---------------
------------------------------------------------------------------------------S-
--------------------------------------------------------S-----------------------
----------------S------------------------S--------------------------------------
-----------S-SS----------------------------------S----S----SS---SSSSS---S-------
--SS-----------------SS-------S-----------SS-----------S------------------S-----
--S--------------------S--S-----------------------S------S-S--S-----------------
--------------S--------S--------------------------------------S---------S---S---
-S-S----S-------------------S-----SSSSSS-------------S----S---------------------
-----------------S-S-----------S------S-----S-----------S-----------------------
-S---------S-----------------------------------------S--------------------------
-------------------S------------------------------------------------------------
----------------------------------S---------------------------------------------
--------------------------------------S---------------S-------------------------
----S----------------------------------------------S-----------------S----------
-----------------------------------S--------------------------------------------
------------------------------------------------S-------------------------------
--------S-----S-----------------------------------------------------------------
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--------------------------------------------------------S--------------S--------
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-------S------------------------S-----SS----------------------------------------
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----------S--------S------------------------------------------------------------
-------------------------------------------S-----------------------S------------
------------------------------------------------------------------------S-------
-S------------------S---------------S-------------------------S-----------------
-------SSSSSSSSSSSSSSSSSSSSSSSSSS---------S------S-----------------S------------
---------------------------S---------------------S-----------S------------------
----S---------------------S-----SS----S----------S---------------------------S--
---------S-----S--SS--------------------------S--S------------------------------
-----------------S-------------S---------------S--------------------------------
--SS--SS------------------------------------S------------S----------------------
-------S-SS-------------------S---------------------S-S-------------------------
S--SS----------S--S-------------------S---------S----SSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SS
>forward_722
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--------------------------------------------------------------CGCAATGCAGCTACATGT
CC------------------------------------------------------------------------------
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>reverse_2162
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-CCATCCAAGGAAAGCGGCAT-----------------------------------------------------------
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>forward_980
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CCAAGAACCACACCGCAAAC------------------------------------------------------------
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>reverse_2890
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---------TGAAGACCTCCAAGCACACC---------------------------------------------------
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--
