>input_sequence_66736
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--------------------------------------------------------------------------ATGGAG
TTCTCGCCAACCGCACCGGCCGGTGGCGAGGAATCCGAGAGGGTTTGCGCGTCGTCGTCGGTGGTGGAGAAAGAGCACAT
GTTCGAGAAGGTAGTGACCCCGAGCGACGTTGGGAAGCTGAACCGCCTGGTCATCCCCAAGCAGCACGCCGAGCGCTACT
TCCCTCTCGATGGTGCTGCCGCAGCGCTGGCGACGGAGGCTAACGGCGGCAAGGGGATGGTCCTCAGCTTCGAGGACCGC
GCGGGAAAGGCGTGGCGGTTCCGGTACTCGTACTGGAACAGCAGCCAGAGCTACGTCATGACCAAGGGCTGGAGCCGCTT
CGTGAAGGAGAAGCGCCTCGGCGCCGGCGACACCGTCCTGTTCGGCCGCGGGGTCGGCGACGGCGCTGCGCGCGGCCGCC
TCTTCATCGACTTCCGCCGCCGACGCCCGGCCGAAGCTTACAGCGCCACCGTATCTTTCCCGCCGCCGGCGACATCGTCT
TTGTCACATCGCCTGCCGCTCCTCCCGTCTGTGCCGTTCTGCCCGTGGCGGCGGGACTTCGGCACCACCTACGGCGTCCC
CCCTGCTGCCTCGGGGTCCAACCGTCATGTGCTATTCCTGCGGCAGCAGGTGCCAGCGGCTGTGGTGCTAAAGTCCGTGC
CGGTGCACGCCGCTGCCTCCGTACTGGAGCCGCCGACGAGGCCTATGCCTAAGCGAGTCCGGCTGTTCGGCGTGAACCTC
GATAGCCCGCCCACGGAAGACGGCGGCGCCTGCGGAGTCACGCAGATGGTGACCTCGACGCTCC---------TGC----
-----TGCCCTTGCCGTCGTCGTCAACGTCGTCGACGGCGGGTAAGGAGAGGCAGTGCTCCCTGGATCTTGGATTGTGA-
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>chr1B_1_TraesCS1B01G215000
TATTGCAACCAATTCCCGCCGCAAACACACGAGGTAATCCTATCATCCAATAGTACTATGTAGAAAGAAACACATGTTCA
CCCGCAAAAAAAAAACACATGTTGAGTGTCATTTTCAGAATGAGATTTCTTT------------------------TATA
CAGTAGATACGATCTATACTAATTTGTAGTGTCAAATGACGAATTTTCTGTGGAAATACAACACAACTCTTCGGTCATCC
-ATCCCATGATTCATGAGGACCTGTGATAAAAAGCTACGTAGAAAATATCGTGCCCACACACAGATTGTTCACCCATCGA
TCCATCCATTCTCACCGATCGCTCGTGCCAGCATATGCCACACAGTTTGTTAACCGAAGGGGTTACCACAGCTAGCAAAC
CAATCTGAATCACACATATCCCATATATAGAGCTGACCGATCACACACAATTGGGTCGTTGAGAGGGACATGCTCCATCA
CATGATCTCTCAAACCCTATCATTCGTAGCCTGTGGACCCCACGC--CCTCACAGCCATCTCTCTCCCTCCTCCCCACCT
CTCGCCCCCTCTCATCTTCCTCCTTAAAGAAGAAAGCAGCTGGCATGGGCTGCTTGTATTGTTCCTGACCTTT--TCTCT
CCTACCTTATCCCATATACATACACTCATACCCACTACACACACACACACACACCAAGATCCAAGAACCAAGAACCTTCA
TTGTGCTCCCCCCTGATGAGCTAGCTAGCTACCCCCCGTTTCTGGCATCTATCTGTTCATCCATGGCATAATCGCATATC
GTAGT--ACACACATCTATTCCAGTTTTCCAATCATCCGAAGAAATCTCGGAGGCCCATATTATAGTAAGCCTGATAGCC
ATAGCCCTAATTCTTTTCTCCAAGAATAGCTGATTATAGTACTGTTGCGTGCCATCCCGGCTCCCAGAAATAGCATAC--
-CAGTCAAAGTCAGCACCTTGGTGCCTCGAGCTCGGGAGGTTGGCAGGGAGCTAGCGCGCCAAGGCCCAAGGCCATGGAG
TTCTCGCCAACCGCACCGGCCGGTGGCGAGGAATCCGAGAGGGTTTGCGCGTCGTCGTCGGTGGTGGAGAAAGAGCACAT
GTTCGAGAAGGTAGTGACCCCGAGCGACGTTGGGAAGCTGAACCGCCTGGTCATCCCCAAGCAGCACGCCGAGCGCTACT
TCCCTCTCGATGGTGCTGCCGCAGCGCTGGCGACGGAGGCTAACGGCGGCAAGGGGATGGTCCTCAGCTTCGAGGACCGC
GCGGGAAAGGCGTGGCGGTTCCGGTACTCGTACTGGAACAGCAGCCAGAGCTACGTCATGACCAAGGGCTGGAGCCGCTT
CGTGAAGGAGAAGCGCCTCGGCGCCGGCGACACCGTCCTGTTCGGCCGCGGGGTCGGCGACGGCGCTGCGCGCGGCCGCC
TCTTCATCGACTTCCGCCGCCGACGCCCGGCCGAAGCTTACAGCGCCACCGTATCTTTCCCGCCGCCGGCGACATCGTCT
TTGTCACATCGCCTGCCGCTCCTCCCGTCTGTGCCGTTCTGCCCGTGGCGGCGGGACTTCGGCACCACCTACGGCGTCCC
CCCTGCTGCCTCGGGGTCCAACCGTCATGTGCTATTCCTGCGGCAGCAGGTGCCAGCGGCTGTGGTGCTAAAGTCCGTGC
CGGTGCACGCCGCTGCCTCCGTACTGGAGCCGCCGACGAGGCCTATGCCTAAGCGAGTCCGGCTGTTCGGCGTGAACCTC
GATAGCCCGCCCACGGAAGACGGCGGCGCCTGCGGAGTCACGCAGATGGTGACCTCGACGCTCC---------TGC----
-----TGCCCTTGCCGTCGTCGTCAACGTCGTCGACGGCGGGTAAGGAGAGGCAGTGCTCCCTGGATCTTGGATTGTGAA
TTCAAGGCCAGATTAAAGACTAGTACTGAGTACTGACACGCGAACTTGA-----TCCAGAGAGGCAATGCGTGATTGGGG
CAGCCTGCGTACGTATATAGCTCCTGCATTATGTGTAACATTCAGATCAGATGGGTTGTTTCTTGACGATATGCATCTTG
CACGTATGATTATTTGCTTGCTAAACTAGCTAGTTAATTATATTGTTCTTCATTTTAGTCTGAGTTTTTCCCTTGACAAT
G-AAGAATGTATCAAACCTCTCTGAACCTCTGCATCATGAGATACATTCGCACGGATTATGGCTTCATGCGCCC-CGTTC
TATAGATTTATGGCTTCCCTTCGTTAGCAAAAGAAAATTATTTATGGCTTCCCTTCATTCGCAAAAGAGAAATATTTATG
GCTTCCCTTTATCACTTACAC-----------TACAGTCTCGTTCCCTAGCTCCCTGCATATGATAACAATTAGCACCAA
TGTA----TATATGCAACTCATGCTTGGGTACGTTTATCTTTCAAGTTTCTTGAAGCAGTGTCGTTCTGGAGATCGATCC
CGAGGCTCTCCTCCCTAAGCAAGGTGAGGTGAGGACTAAGGAGGTC----AGGTGTCAGAACATAATCCTTCT---ACAC
GTACAGATATCCGCATCGATCGGCTATGAACATTGTCTACTGCCG-----------------------------------
-------CATGCATCTGATGTCTACTGATTTCTGATGCGCTTCTGACTCTGTTTGCTCCACCGCATGCATGCCGCAAATC
TCTGCAGCTCGTTCAAGACTCGTCTGAAATTATGCCAGCTGTTTCAGCTCTTGAAATCAATACTATTACTAGCTAGCCAA
GTAGCCATATCAAGTACATATATAGTTGTGAGAAGTAATACTGTTATGAAGCTTTGTG--CTGCTATCGTGCAACCACCG
TGCGGTGGAACACCTCTCTCCAGTTCAAATATTCTTCAGGGCACACTATTTGTATATAGCACCTTCAGTCCATAGTAAAT
TAAACTGGCATGTAATACTAATATTAATACTA
>chr1D_1
TATTGCAACCAATTCCCGCCGCAAACACACGAGGTAATCCTATCATCTAGTAGTACTATGTAAAAAGAAACACATGTTCA
CCCGCAAAAA--AAACACATGTTGAGTGTCATTTTCAGAATGAGATTTCTTT------------------------TATA
TAGTAGATACGATCTATACCAATTTGTAGTGTCAAATGACGAATTTTCTGTGGAAATACAACGCAACTCTTCGGTCATCC
AATCCCATGATTCATGAGGACCTGTGATAAAAAGCTATGTAGAAAATATCGTGCCCACACACAGATTGTTCACCCATCGA
TCCATCCATTCTGACCGATCGCTCGTGCCAGCATATGCCACACAGTTTGTTAACCGAAGGGGTTACCACAGCTAGCAGAC
CAATCAGAATCACACATCCAT-ATATAGAGCTGACCGATCACACACACAATTGGGTCGTTGAGAGGGACATGCTCCATCA
CATGATCTCTCAAACCCTATCATTCGTAGCCTGTGGACCCCACACGTCCTCATAGCCATCTCTCTCCCTCCTCCCCACCT
CTCGCCCCCTCTCATCTTCCTCCTTAAAGAAGAAAGCAGCTGGCATGGGCTGCTTGTATTGTTCCTGACCTTT--TCTC-
-CTACCTTATCCCATATACATACACTCATACCCACTACACACACA---------------CCAAGATGCAAGAACCTTCA
TTGTGCTCCCCCCTGATGAGCTAGCTAGCTACCCCCCGTTTCTGGC----ATCTGTTCATCCATGGCATAATCGCATATC
GTAGCACACACACATCTGTTCCAGTTTTCCAATCATCCGAAGAAATCTCGGAGGCCCATATTATAGTAAG-CTGATAGCC
ATAGCCCTAATTCTTTTCTCCAAGAATAGCTGATTATAGTATTGTTGCGTGCCATCCCGGCTCCCAGAAATAGCATAC--
-CAGTCAAAGTCAGCACCTTGGTGCCTCGAGCTCGGGAGGTTGGGAGGGAGCTAGCGCGCCAAGT-------CCATGGAG
TTCTCGCCAACCGCACCGGCCGGTGGCGAGGAACCCGAGAGGGTTTGCGCGTCGTCGTCGGTGGTGGAGAAAGAGCACAT
GTTCGAGAAGGTAGTGACTCCCAGCGACGTGGGGAAGCTGAACCGCCTGGTCATCCCCAAGCAGCACGCCGAGCGCTACT
TCCCTCTCGATGGCGCTGCCGCAGCGCTGGCGACGGAGGCTAACGGCGGCAAGGGGATGGTCCTCAGCTTCGAGGACCGC
GCGGGAAAGGCGTGGCGGTTCCGGTACTCGTACTGGAACAGCAGCCAGAGCTACGTGATGACAAAGGGCTGGAGCCGCTT
CGTGAAGGAGAAGCGCCTCGGCGCCGGCGACACCGTCCTGTTCGGCCGCGGGGTCGGCGACGGCGCTGCGCGCGGCCGCC
TCTTCATCGACTTCCGCCGCCGACGGCCGGCCGAAGCTTACAGCGCCACTGTAGCTTTCCCGCCGCCGGCGACATCGTCT
TTGTCACATCGCCTGCCGCTCCTCCCGTCTGTGCCGTTCTGCCCGTGGCGGCGGGACTTCGGCACCACCTACGGCGTTCC
CCCCGCTGCCTCGGGGTCCAACCGTCATGTGCTATTCCTGCGGCAGCAGGTGCCAGCGGCTGTGGTGCTCAAGTCCGTGC
CGGTGCGCGCCGCGGCCTCCGTACTGGAGCCGCCGACGAGGCCTATGCCTAAGCGAGTCCGGCTGTTCGGCGTGAACCTC
GATAGCCCGGCCACGGAAGACGATGGCGCCTGCGGAGTCACGCAGATGGTGACCTCGACGCTCCTGCAGCAGCTGC----
-----TGCCCTCGCCGTCGTCGTCAACGTCGTCGACGGCGGGTAAGGAGAGGCAGTGCTCCCTGGATCTTGGATTGTGAA
TTCAAGGCCAGATTAAAGACTAGTACTGAGTACTGACACGCGAACTTGA-----TCCAGAGAGGCAATGCGTGGTTGGGG
CAGCCTGCGTACGTATATAGCTCCTGCATTATGTGTAACATTCAGATCAGATGGGTTGTTTCTTGACGATATGCGTCTTG
CACGTATGATTATTTGCTTGCTAAACTAGCTAGTTAATTATATTGTTCTTCATTTTAGTCTGAGTTTTTCCCTTGACAAT
G-AAGAGTGTATCAAACCTCTCTGAACCTCTGCATCATGAGATGCATTCACACGGATTATGGCTTCATGCGCCCTCGTTC
TATAGATTTATGGCTTCCCTTCGTTAGTAAAAGAAAAATATTTATGGCTCCCCTTCATTCGCAAAAGAAAAATATTTATG
GCTCCCCTTTATCACTTACAC-----------TACAGTCTCGTTCCCTGGCTCCCTGCATATGATAACAATTAGCACCAA
TGTA----TATATGCAACTCATGCTTGGGTACGTTTCTCTTTCAAGTTTCTTGAAGCAGTGTCGTTCTGGAGATCGATCC
CAAGGCTCTCCTCCCTAAGCAAGGTGAGGTGAGGACTAAGGAGGTCAGGTAGGTGTCAGAACCTAATCCTTCTCCTACAC
GTACAGATATCCGCATCGATCGGCTATGAACATTGTCTGCTGCCG-----------------------------------
-------CATGCATCTGACATCTACTGATTTCTGATGCGCTTCTGACTCTGTTTGCTCCACCGCATGCATGCCGCAAATC
TCTGCAGTTCGTTCAAGACTCGTCTGAAATTATGCCAGCTGCTTCAGCTCTTGAAATTAATACTATTACTAGCTAGCCAA
GTAGCCATATCATGTAG-----TAGTTGTGAGAAGTAATACTGTTATGAAGCTTTGTGTGCTGCTATCGTGCAACCACCG
TGCGGTGGAACACCTCTCTCCAGTTCA-----------------------------------------------------
--------------------------------
>chr1A_87
A-------------------------------------------------------------------------------
-----AAAAG--AAACACATGTTGAGTGTCATTTTCAGAATGAGATTTCTTTCTTTTTCAGAATCGAGATTTCTTTTATA
TAGTGGATGCAACCTA-----------------------------TTTTGTGGGAATACAACGCAACTCTTAGGTCATCC
AATCCCATGATTCATGAGGGTCTGTGATGAAAAGC----TAGAAAATATCGTGCCC-CACACAGATTGTTCACCCATCGA
TCCATCCATT-TCACCGATAGCTCGTGCCAG--TATGCCACACAAATTGTTAACCGAAGGGGCTACCACAGCTAGCAAAC
CAATCAGAATCACACATCCAT-ATATAGAGAGCTGACCGATCACACACAATTGGGACGTTGAGAGGGACATGCTCCATCA
CATGATCTCTCAAACCCTATCATTCGTAGCCTGTGGACCCCACACGTCCTCACAACCATCTCCCTCCCTCCTCCCCACCT
CTCGCCCCCTCTCATCTTCCTCCTTAAAGAAGAAAGCAGCTGGCATGGGCTGCTTGTATTGTTCCTGACCTTTTCTCTC-
-CTACCTTATCCCATATACATACACTTATACCCACTACACACACA---------------CCAAGATCCAAGAACCTTCA
TTGTGCTCCCCCCTGATGAGCTAGCTAGCTACCCCCCGTTTCTGGC----ATCTGTTCACCCATGGCATACTCGCATATC
----------------TATTCCAGTTTTCCAATCATCCGAAGAAATCTCG-AGGCCCATATTATAGTAAG-CTGATAGGC
ATAGCCCTAATTCTTTTCTCCAAGAATAGCTGATTATAGTACTGTTGCGTGCCATCCCGGCTCCCAGAAATAGCATACAA
CCAGTCAAAGTCAGCACCTTGGTGCCTCAAGCTCGGGAGGTTGGGAGGGAGCTAGCGCGCCAAGT-------CCATGGAG
TTCTCGCCAACCGCACCGGCCGGTGGCGAGGAATCCGAGAGGGTTTGCGCGTCGTCGTCGGTGGTGGAGAAAGAGCACAT
GTTCGAGAAGGTAGTGACTCCCAGCGACGTGGGGAAGCTGAACCGCCTGGTCATCCCCAAGCAGCACGCCGAGCGCTACT
TCCCGCTCGATGGCGCTGCCGCAGCGCTGGCGGCGGAGGGTAGCGGCGGCAAGGGGATGGTCCTCAGCTTCGAGGATCGC
GCGGGAAAGGCGTGGCGGTTCCGGTACTCGTACTGGAACAGCAGCCAGAGCTACGTGATGACCAAGGGCTGGAGCCGCTT
CGTGAAGGAGAAGAGCCTCGGCGCCGGCGACACCGTCCTGTTCGGCCGCGGGGTCGGCGACGGCGCCGCGCGCGACCGCC
TCTACATCGACTTCCGCCGCCGGCGCCCGGCCGAATCCTACAGCGCCACCGTAGCTTTCCCGCCACCGGCGACGTCGTCT
TTGTCACATCGCCTGCCGCTCCTCCCGTCTGTGCCGTTCTGCCCGTGGCGGCGGGACTTCGGCACCACCTACGGCGTCCC
CCCCGCTGCCTCGGGGTCCAATCGTCATGTGCTATTCCTGCGGCAGCAGGTGCCAGCGGCTGTGGTGCTCAAGTCCGTGC
CGGTGCGCGCCGCGGCCTCCGTACTGGAGCCGCCGGCGAGGCCTATGCCTAAGCGAGTCCGGCTGTTCGGCGTGAACCTC
GATAGCCCGGCCACGGAAGACGATGGCACCTGCGGAGTCACACAGACGGTGACCTCAACGCTCC---------TGCAGCA
GCTGCTGCCCTCGCCGTCGTCGTCAACGTCGTCGACGGCGGGTAAGGAGAGGCAGTGCTCCCTGGATCTTGGATTGTGAA
TTCAAGGCCAGATTAAAGACTAGTACTTAGTACTGACACGCGAACTTGATCCAGTCCAGAGAGGCAATGCGTGATTGGGG
CAGCCTGCGTACGTATATAGCTCCTGCATTATGTGTAACATTCAGATCAGATGGGTTGTTTCTTGACGATATGCATCTT-
-ACGTATGATTATTTGCTTGCTAAACTAGCTAGTTAATTATATTGTTCTTCATTTTAGTCTGAGTTTTCCCCTTGACAAT
GAAAGAATGTATCAAACCTCTCTGAACCTCTGCATCATGAGATACATTCACACAGATTATGGCTTGATACGCCC-CGTTC
TATAGATTTATGGCTCCCCTTC----------------------------------ATTGACAAAAGAAAAGTATTTATC
GCTTCCCTTTATATACTTATTACACTACAGTGTACAGTCTCGTTCCCT-GCTCCCTGCATATGATAACAATTAGCACCAA
TGTAGGAGTATATGCAACTCATGCTTGGGTACGTTTCACTTTCAAGTTTCTTGAAGCAGTGTCGTTCTGGAGATCGATCA
CAAGGCTCTCCTCCCTAAGCAAGGTAGGGGCTAG----AGGAGGTCAGGTCAGTGTCAGAACCTAATCCTTCTCCTACAT
GTACAGATATCCGCATCGATCTGCTATGAACATTGTCGTGCTAGCTTCTTGGGTTGGTTCTCGTGCGCAATTCTTTCCCA
GCTGCCTCATGCATCTGATGTCTACCGATTTCTGACGCGCTTCTGACTTTGTTTGCTGCACCGCATGCATGCTGCAAATC
TCTGCAGTTCGTCCAAGACTCTTCTGAAATTATGCCGGCTGCTTCAGC-CTTGAAATTAATACTGTTACTAGCCAGCCAT
GTCAACTGGTTGTGAGAAC---------TGAGAAGTAATACTGTTATGAAGCTTTGTG--GTGCTATCGTGCAACCACCG
TGCGGTGGAACACCCCTCTCCAGTTCAAATATTCTTCAGGGCACAGTATTTGTATATAGCACCTTCAGTCCATAGTAAAT
TAAACTGGCATGTAATACTAATATTAATACTA
>SNPs
-----------------------------------------------S-S------------S-----------------
----------SS--------------------------------------------------------------------
S------------------S------------------------------------------S-----------------
-------------------------------------S------------------------------------------
--------------------------------------------------------------------------------
-----S-----------SSSSS-----S----------------------------------------------------
-------------------------------------------S------------------------------------
-------------------------------------------------------------------------------S
S--------------------------------------------SSSSSSSSSSSSSSS------S-------------
----------------------------------------------SSSS------------------------------
----S-----------------------------------------------------------------S---------
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--------------------------------------------S-------------------SSSSSSSS--------
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------------------S--S--------S-------------------------------------------------
-------------S------------------------------------------------------------------
--------------------------------------------------------S-----------------------
--------------------------------------------------------------------------------
-----------------------------------------------------S--------------------------
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---S-----------------------------------------------------------------S----------
------S------S------------------------------------------------------------------
---------S------------SS--------------------------------------------------------
-----------S--------------------------------------------------------------------
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-------------------------------------------------S------------------------------
---------------------------S---------S-----------S------------------S-----------
------------------------------------------------S-------------------------------
------------------------------------S-------------------------------------------
-S------------------------------------------------------------S-----------------
--------------------------------------S-----------------------------------------
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-------S---------------------------------S---------------S----------------------
------------S---S-SSSS----------------------------------------------------------
---------------------------------------------S----------------------------------
--------------------------------
>forward_696
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------------------------------------ACACACACACACACACACCA------------------------
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>reverse_2210
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-------------------------------------------------GCACGGATTATGGCTTCATGC----------
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