>input_sequence_78143
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---------------------CCTGCCAGTTCATTACTCTT----CTCCTCGCTCCCAGTTTTGAATCGAGAGAGAGAGA
GAGAGAGAGGTGTTGGGTGCAGCTAGTAGCTAGGAGCAAGCAAGCAGATCCAGGAGGA------------GCAGAGCGGA
GCGGAGATGGCGGACTGGGGGCCGGTCGTGGTCGCGACGGTGCTCTTCGTGCTGCTGACGCCGGGGCTGCTGTTCCAGCT
GCCGGCGCAGGGCCGGATCGTGGCCTTCGGCAGCATGCACACCGGCGGCCTCGCCATCCTCATCCACGCCGTCATCTACT
TCGCCCTCATCACCATCTTCCTCATCGCCATCGGGGTCCACATCTACGCCGGCTAGACCCCACACCC--ACTCCTCTTCG
CCGCACAT----------CTCCGCCGTGCGTGCCTATGAAGCTTTGCTGTCCCGGAGGCGGCT---TCTCTTACTATTAC
CGCTTGTATTGTACTTACTGTGTAGTGGGTACCTTCTATTATTGTCTTCTTCATTTAGGTGGCCAGAGAAACAA------
---------A----------------------------------------------------------------------
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>chr4A_1_TraesCS4A01G028600
TTTTT-TTGTCAATTGGGTGTGAGTGGACCCATGTTCACCAAAGTATCAAATTTCAACAGACAACATCAAGGTATGACCA
TCCA--AAATCTGGCGAACAGTTTATGGATCAATGGATAGGTGG-------TTCCGATGTGCATGGTTGCTAGTGCTACC
CAAAAAAAACAACATGAGTAGCCACGGCATGAGGTAACTAA------------AAATGCCAGATGGTGTCGGTCCTTTCT
TTG-CGGAACAAATGGTGTCGGTATGGTAACATGTCCCAGTCATTCCTTTCGTGCTTCTGTTGGGAAAGATATTCTTTCC
TGCATTGTGTAGAGAAACGGGAAGTATATGTGTGTGTGTATGTGTTTTTTTTTTCCTCTTTCCGCACGGAAACTTCCCGC
TTTCTTCACATCCCCTGCAAAAGCACCGCACAATGAAAAGAAAAGAAAAGAAAACAT-----TTCTGCTCGTTCATGGC-
TTCATTGTCAGACCCCTCTTCTTCTTGTGATCCTTTTCTTTATCGAACTCCCCTGCCTGTTACCAAGCA-----------
---GAGAACGTGCACGAGCGACAGATTTTGGATTTCGCCGACTCGACAGCA-----CACGAGAACTAGTGGACAGTGATG
GCAGATACTACTTCTACTACCACCATCACGTGAATCTACAGCCTTGTTTGCGCGAGGTCCGAGGTCAGATCGTCGAGAAG
CAAAATAGTGTAGTGCTGCGTACTAGCGCTTGGATCCAAGC---CGACGACTGGCGGATTTGGATCCTACTCACCGGAGA
TGTTCACGTGGCGGTGCGCACCGCCCTTTCCCCCCGCGAGAGAT--AGAGATAGAGAGCCTTTCCACCCACTGCATCT--
--ACACGACGTGTATGACACTACGGGAG----CCCGCGCGGCTCACTGGAGCAGGTTCGCGTGCCGCTGTGTGCCTCCGT
GAGCGCTCCGCGTGGCCCGCCGACCGTTTACTCCTTTCCCCAAGCCCAAGCCCAAGCCCAAGCCTGCCTATTAAAACCCA
GCGCTACTCATCCTCTGCCTCCCTGCCAGTTCATTACTCTT----CTCCTCGCTCCCAGTTTTGAATCGAGAGAGAGAGA
GAGAGAGAGGTGTTGGGTGCAGCTAGTAGCTAGGAGCAAGCAAGCAGATCCAGGAGGA------------GCAGAGCGGA
GCGGAGATGGCGGACTGGGGGCCGGTCGTGGTCGCGACGGTGCTCTTCGTGCTGCTGACGCCGGGGCTGCTGTTCCAGCT
GCCGGCGCAGGGCCGGATCGTGGCCTTCGGCAGCATGCACACCGGCGGCCTCGCCATCCTCATCCACGCCGTCATCTACT
TCGCCCTCATCACCATCTTCCTCATCGCCATCGGGGTCCACATCTACGCCGGCTAGACCCCACACCC--ACTCCTCTTCG
CCGCACAT----------CTCCGCCGTGCGTGCCTATGAAGCTTTGCTGTCCCGGAGGCGGCT---TCTCTTACTATTAC
CGCTTGTATTGTACTTACTGTGTAGTGGGTACCTTCTATTATTGTCTTCTTCATTTAGGTGGCCAGAGAAACAA------
---------ATATGGTTTGTTGTTTGCCTGGCTGGGATTTCGTTTGAGATGGCTGCCAGTGGCATGGCGCTCTCCGTCTC
TGGGATGAAAATTTATCCAGA-AAGGCTGGCTGGTGTTGCTGCTGCCGTTGCCCTTGTGATTCCTCTCTTGAGTTAACCT
TGGACATGTTAATTTATCCATCTTTTTCACGCTGCTCTTCTTCAAATCATACTGTATCTTT------CTTCTTCCTTGG-
AGAAAGTTGTGTGTT-CGAGTTACCTGAACGAACGCACGTCATTCAGAATATAAGCTAAAGAACAAGAACCCATTCCAGC
TCTGCTGCGTGCACTGTGCAGTTGTACTGAACTCCTCCCGGTT-------------------------------ACCT-T
CAGAGTCTGCCCGTAGCTTGCACCAGTAGGTCTTGTCACT-CCCTTTGCGCACTTCGCGGATCGTTTCGTTTGGGTGGGT
GTGAAGGTCTTGCTCG-CCCCTGCTCCCCTGCCGCATATGCTGCGCTGGACCAAATCGGTTCATGTGCCATTTCAAAAAA
AAAAAAAGGATCGGTTCATGTGCAGATGTGCTCCCACCGACCGGATCACCTTTGCTCCCATCGGCCGTAAGCAACTTGGG
GGCT--------ATTAAGCGGCTTCGAATCGGATTCTACTCCGCTGAAAAGTCACATCGAACCGACACACACCGAGGCCG
GACTTAGACAAATCCGTCCCTGCGCGTATGCGGACATTAACGTCTCAAGTATTTGATTTTATAATTAGATAACTTAAATT
AGAAACCTCAGCACATCCGGTTTCGCCGTGTCCATGTCTGGTGGTCGGTTATGCTCCTCAGAATGTTGGTTTGGTCACCG
GCAAGATAGAGTAGGGCACGGGACATGTGCCGGTTCAGGAGACTTAAAGCGCCGCCGTCTTACATGTCCTACTCTTTCTT
ATCATAGCCCGGACCCCGAACAATGCTGGAGGAGTCAGATCGATTATGGATCCGTTTTGGGATGAGCTAATGACATTCAC
CATGACGCGATTACGGCGTCC
>chr4B_1
TTTTGTTTGTCAATTGGGTGTGAGTGGACCCATGTTCACCAATGTATCAAATTTCAACAGATAACATCAAGGTATATAAC
CATCCGAAATCTGGCGAACTGTTTATGGATCAATGGATAGGTGGGCAGTTTTTCTGATGTGCATGGTTGCTAGTGCTAGC
GAAAAGAAACAACATGAGTAGCCACGGCATGAGGTAACTAAAACAGTTTTGCTAAATGCCAGATGGTGTCGGTCCTTTCT
TTG-CGGAACAAATGGTGTCGGTATGGTAACATGTCCCAGTCATTCCTTTCGTGCTTCTGTTGGGAAAGATATTCTTTCC
TCCATTGTGTAGAGAAACGGGGAGTATAA-------------------TTTTTGCTCCTTTCCGCACGGAAATGTCCTGC
TTTCTTCACATCCCCTGCAAAAGCACCGCACAAAGAAAAGAAAA-----GAAATGAAATGACTTCCGCTCGCTCATTGTA
TTCATCGTCAGACCC--CTTCTTATTGTGATCCTTTTCTTTATCGACCTCCC-TGCTTGTTGCCAAGCA-----------
---GAGAACGTGCAGGAGCGACAGATTTTGGATTTCACCGACTCGACGGCA-----CACGAGAACTAGTGGACAGTAATG
GCAGATACTTCT---ACTACCACCATCACGTGAATCTATAGCCTTGTTTGCGCGACGTCCGAGGTCAGATCGTCCAGAAA
CAAAATAGTGGAGTGC-------TAGCGCGTCGATCCAAGCCGACGACGACTGGCGGATTTGGATTCTACTCACCGGAGA
TGTTCACGTGGCGGTGCGCACCGCCGTTTCCCCCCGCAAGAGAT--CGAGAGAGAGAGCCTTTCCACCTACTGCATACGC
ACACACGGCGTGTATGACACTACGGGAAGGAACCCGCGCGGCTCACTGGAGCAGGTTCGCGTGCCGCTGTGTGCCTCCGT
GAGCGCTCCGCGTGGCCCGCCGACCGTTTACTCCTTTC------------CCCAAGCCGAAGCCTGCCTATTAAACCCAA
-CGTTACTCTTCCTCTGCTTCCCTGCCAGTTCATTACTCTTCTTCCTCCTCGCTCCCAGTTTTGAATCGAGAGAGAG---
---------GTGTTGGGTGCAGCTAG---CTTGGAGCAAGCAAGCGGATCCAGGAGGAGCCGACCGGAGTGC--------
--GGAGATGGCGGACTGGGGGCCGGTGGTGGTCGCGACGGTGCTGTTCGTGCTGCTGACGCCGGGGCTGCTGTTCCAGCT
GCCGGCGCAGGGCCGGATCGTGGCCTTCGGCAGCATGCACACCGGCGGCCTCGCCATCCTCGTCCACGCCGTCATCTACT
TCGCCCTCATCACCATCTTCCTCATCGCCATCGGCGTCCACATCTACGCCGGCTAGACCCC----CC--ACTCTTCTTCG
CCGCACAGCGCTTCTCGGCTCTGCCGCGCGT---TATTAAGCTTTGTTGCCTGCCGAGCTTGTCTGTCCCTTACTACTAT
TATTGTTGATGTACTGTGTGTGTAGTAGCTTCTG-------TTGTCTTC----TTTGGTTGATCGGAGAAACAATCGGAA
GCTAGTAGTATATGGTTTGGTGGTCGGCTG--TGGGGTTTCGTTTGAGATGGCTCTA-------------------TCTC
TGGGATGAAATTTTATCCGGAGAAGAATGGATGTTGTTGTTGCTCCTGTTGCCGTTGTGAATCCTCTCTTGAATTAACCT
TGGACGTGTCAATTTATTTATTTCTCGCTTGATATCCAACCTTTTGATTGTTTTCTTCAGCTATCTGTTGCTTCCGTAGA
AAAAAGCTATGTGTTCCGAGTTATCTGAATGACACCACCTCACTCAAAATCAAAAGACACGGAACAAAAACCATTCCAAC
TCTGTTGCGTGCACTGTGCAGTCGTA---------------------------------TAGCAGCAAATGTTAATCCAT
CAGAATCTGCCCGTAGCTTGCACTAGTAGGTTTTGTCACCCCCTTTTGCGCACTTCGCGGATCGTTTCATTTGGGTCGGT
CA--------TGCTCG-CCCCGGCTCCCCTGCCGCATAAGCTGCGCTGGACCAA--------------------------
---------ATCGGTTCATGTGCAGATGTGCTCCCACCGACCGGATCCCCTTTGCTTCCATCGCCCGTCAGCACCTTGAG
CGCATAGATGCGATTAAGCAGCTTCGAATCGGATTCTACTCCGCTGCAAAGTCACTTCGAACCGACACAC----------
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>chr4D_183
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--------------------------------GGTAACAAA------------AAATGCCAAATGGTGTCGGTTTTGCCT
TTCACGGAACAAATGC-GTCGGTATGGTAACATGTCCCGGTCATTCCTTTCGTGTTTCTGTTAGGAAAGATATTCTTTCC
TCCATTGTGTATAGAAACGGGAAGTATATCTA-------------TTTTTTTCTCTCCTTTCCGCACGGAATCGTCCCGC
TTTCTTCACATCCCCTGCAAAAGCACCACACAAAGAAAAGAAAA-----GAAAGCAT-----TTCCGCTCGTTCATGGC-
TTCATTGTCAGATCC--CTTCTTCTTGTGATCGTTTTCTTTATCGATCTCCACTGCTTGTTATACTCCTAACCAAGCAGA
GCGGAGAACGTGCACGAGCGAAAGATTTTGGATTTCACCGACTAGACGGCACGAGGCACGAGCACTAGTGGACAGCAATG
GCAGATACTACT---TCTACT---ATCACGTGAAACTACAGCCTTGTTTGCGCGACGTCCGAGGTCAGATCGTCCAGAAA
CAAAATAGTGGAGTGC-------TAGCGCTTCGATCCAAGCCGACGACAACTGGCGGATTTGGATTCTACTCACCAGAGA
TGTTCACGTGGCGGTGCGCACCGCCCTTCCCCCC-GCAAGAGATGGAGAGGTAGAGAGCCTTTCCACCTACTGCATACGC
ACACACGACGTGTATGACACTACGGGAAGGAACCCGCGCGGCTCACCGGAGCAGGTTCGCGCGCCGCTCTGTGCCTCCGT
GAGCGCTCCGCGTGGCCCGCCGACCGTTTACTCCTTTC------------CCCAAGCCCAAGCCTGCCTATTAAACCCAA
-CGCTACTCTTCCTCTGCTTCCCTACCAGTTCATTACTCTTCTTGCTCTGAATCGCGAGAGAGAGAGGGG--GAGAGAGA
GAGAGAGAGGTGTTAGGTGCAGC---TAGCTAGGAGCAAGCAAGCAGATCCAGGAGGA------------GC--------
--GGAGATGGCGGACTGGGGGCCGGTGGTGGTCGCGACGGTGCTGTTCGTGCTGCTGACGCCGGGGCTGCTGTTCCAGCT
GCCGGCGCAGGGCCGGATCGTGGCCTTCGGCAGCATGCACACCGGCGGCCTCGCCATCCTCGTCCACGCCGTCATCTACT
TCGCCCTCATCACCATCTTCCTCATCGCCATCGGGGTCCACATCTACGCCGGCTAGACCCC----CCCCACTCTTCTTCG
CCGCACATCGCTTCTCGGCTCTGCCGCGCGT---TATTAAGCTTTGTTGCCTGCCGAGCTTGTCTGTCTCTTACTACTAT
TATTGTTGATGTACTGTGTGTGTAGTAGCTTCTG-------TTGTCTTC----TTTGGTTGATCGGAGAAACAATCGGAA
GCTAGTAGTATATGGTTTGGTGGTCGGCTG----GGGTTTCGTTTGAGATGGCTCTT------------------GTCTC
TGGGATGAAATTTTATCCAGA-A----TGGCCGTTGTTGTTGCTCCTATTGCCGTTGTGAATCCTCTCTTGAATTAACCT
TGGACGTGTCAAATTATTTATTTCTCGCTTGACATTCAACTTTTTGTTTGTTTTCTTCAGCTATCTGCTGCTTCCGTAG-
AAAAAGCTATGTGTTCCGAGTTATCTGAATGACACCACCTCACTCAAAATCAAAAGACACGGAACAAATACCATTGCAAC
TCTGTTGCGTGCACTGTGCAGTTGTACTGAACTCCTCCCGGCTACCGGTTACTGATTTGTAGCAGCAAATGTTAACTT-T
CAGAATCTGCCCGTAGCATAG--TAGTAGGGTTTGTCACTCCCTTCTGCGCACTTCGCGGATCGATTCATTGGGGTGGGC
GTGACGGTCATGCGCCCCCCCGGCTCCCCTGCCGCATAAACTGCGTTGGACCAA--------------------------
---------ACCGGCTCACGTGCAGATGTGCTCCCACCGACCGGATCCCCTTTGCTTGCATCGGCCGTCAGCAACTTGAG
GGCATATATGCGATTAAGCAGCTTCGAATCGGATTCTGCTCCCCTGCAAAGTCACTTCGAACCGACGCAC----------
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>SNPs
----S-------------------------------------S------------------S-------------SSSSS
SSSS---------------S----------------------------------S-----------------------S-
S----S--------------------------------------------------------------------------
--------------------------------------------------------------------------------
-S---------------------------S-SSSSSSSSSSSSSS----------SS----------------S------
---------------------------------S----------SSSSS----S-----------S--------------
---------------SS-----------------------------S---------S-----------------------
------------------------------------S----------S----------------------------S---
------------SSS----------------------------------------S------------------S----S
----------S-----SSSSSSS--------S---------------------------------S--------------
-------------------------------------S------------------------------S-------SS--
---------------------------S----------------------------------------------------
--------------------------------------SSSSSSSSSSSS-------------------------S--S-
S--------S--------S-------------------------------------------------------------
------------------------------------------------------------------------SSSSSSSS
SS------------------------S-----------------S-----------------------------------
-------------------------------------------------------------S------------------
-------------------------------------------------------------SSSS--------S------
---------------------S----S----SSS---S--------S--S-SSSSSS--SSS--------------S--S
SSS-SS-SS------SSS--------S-S-S-SSSSSSSSS--------SSSS---S-S--SS-S---------------
-------------------S--S-S-S---SS----S-----------------SSSSSSSSSSSSSSSSSSSSS-----
----------S--------------SS------S-----S----S-S------S------S-----------S-------
-----S---S-------SS--S-S-SS-SS-S-SS--SS---SSSS-SSSSS-SSS--SSS--------S-----S-S--
-S----S-S--------------S-----S--SSS---S---S---S---SS--SSSS-S-S-SS-S--S--------S-
----S------------------------------------S--------------------------------------
----S------------------S-------S-----------S------------------------S-----------
----S----S-----------S----------------S---------------SSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSS--------------------------------------S--------S-----------S---------S-
---S---------------S--------------------------S--------S--------------SSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSS
>forward_496
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----------------------------------------------------------------------------TGGC
TTCATTGTCAGACCCC----------------------------------------------------------------
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>reverse_2584
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-----------------------TGCTGGAGGAGTCAGATCGA-------------------------------------
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