>input_sequence_82312
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--------------------------------ATGCGTCCGCCTGTCCTCTTGTCTCTTGTTCTCCTTCTTGTCGTATGC
CTTGCCTGGGCTACTACCACACACTGTAAGCTGCCTTGCTTAATTGCTACGCTCATTTCTCGATCGTAGTATGCCTTCCA
ATAATCTAATGTGTCTCGCGTGTTTTGCATGCATGTATGCATAGGTGAAGGAATGATGATGAACGTGGATAATGGTGGTG
GTAAGGAGAAGGAGAAGGAGAAGATCAGCTTACCATACGGGTTGTGCGTCCACAAAAAAACGGTTGACCCCTGCTATTAT
CACAAGTTGTGCTACTGCTGCGATCTCACCAA-GTCTGTCATGCTACACTCGATGAATGCAAGCAAGATTGCAAATAATA
TATAG---------------------------------------------------------------------------
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>chr4A_1_TraesCS4A01G001000
AGCGAAAGATCTTCTGAAGACGCTCATGGGCGTAATATAGTGTTTGCCTACGAGTTGATGGGAGTGAAGCAAGACTAGCA
ACTCCCCCTTTAGGAGTAGATATTTAGGAGTAGAGATAACTTGAAAAATAGTAGTACATACAATTTGGAAAGACGTGTAA
GAAGTAGAAGGTGATAATCCACCTAATTAATAATAACTTTTTTTGCATGGTAATTAATAATAAC----TTTTCGTGGGAA
AGTAATTAATT-----------------------------ATAACTTGACAGCCCGCATTCATGTTTCGTCAGGACGAGA
CTTGCCTGCTCCCCCAGCGTGCTCTCATCCATGCTCCCGCATACGTGACATGATTTGATTGGAACAAAATAAGGCCCGGT
CCCACCCCTTAAAATCAAGGGGGGGATGATTAGATTAGAAAGAAAAAGAAGAAAAAGACAGCCGTAGGATGGAGTGGGAG
CACGGATGGGAGCATGGCAAGGGAGCAGGCAAGCCGGATCCGTTTTGCCAATGTATTTTGGAT-TTTTTTCCAAAAGAAG
AGAGATAAATTAGCACGAGAATACTCCCTGTGTCCGCGAATAAGTATATACTTCTATCTTTTATCCTAAGTTAAAGTTTT
AAACTTTTGACTAACTTTATGAAAAAGAGTAGTAACATACTATAAGACATCAAATTGGTACATTATGAAATTACATTTCA
AAACGAATCTAGTGATACTAATTTAGTGCCATACATGATGCTACTCTTCCCTACAAAGTTAG------------------
--------------------ATGAACATTTATTCGCGGATCGGAGGGAGTAACTAAGTATAGAAGGATATTAATGATTAT
GCATATCCAATCTGGTGGTGATTACTATATTATACTATCAATGAATGCTTGATCTTTTTGCAAGGGAATGCTCTCTCCCT
CCTTATTGTTCTATGTCTATATAGTATACAGCAAGGATTATGGGTGGATGGAGGAATCATCTTGTAGTTTTTGCAGTTGT
AAATCCCCTTCCTTCCTTGCTGTTGATAAACCATGCGTCCGCCTGTCCTCTTGTCTCTTGTTCTCCTTCTTGTCGTATGC
CTTGCCTGGGCTACTACCACACACTGTAAGCTGCCTTGCTTAATTGCTACGCTCATTTCTCGATCGTAGTATGCCTTCCA
ATAATCTAATGTGTCTCGCGTGTTTTGCATGCATGTATGCATAGGTGAAGGAATGATGATGAACGTGGATAATGGTGGTG
GTAAGGAGAAGGAGAAGGAGAAGATCAGCTTACCATACGGGTTGTGCGTCCACAAAAAAACGGTTGACCCCTGCTATTAT
CACAAGTTGTGCTACTGCTGCGATCTCACCAA-GTCTGTCATGCTACACTCGATGAATGCAAGCAAGATTGCAAATAATA
TATAGTAGAACATGAAGGCGCGCATTTCTGCGCCCGTCTATCCTAATGAAAGTTCAATAAAAATATTTTCAATAAAATAA
GGAATAGAGGTGGAAATTTGAATAATTAGTCAATATTGCCTATTTTTATTGCATGG------------------------
-----------------------------AATATCTTCATCTAAGTAAACTTGTAGGAGATGTGCAAATCCTTTGCTGAC
GCATAAGACACAAGGCAGAGAGAAAAAAAATAGAAGTCAT----------------------------------------
-------------------AATCTATAATTGTATAATT------------------------------------TATAAT
TCAAAGTCAAAGTACACCTACAGATTTTGGTATGGTTGATAGAGGGGCGGCTAGGAGCACGACGAGGACGGGAAGGCGGA
GATGCAAGAGGCAGAGCAGGGAGCTGCTGGGGCCGGCGGCGTATGTATGGAATCCCAAAGCTGCACCTACGTGATATAGA
AAAAACCAAAAACCAAAGAGCTTATTCCCAGGGAGCTTAATATTATATATATATATATATATATATATATATATATATAT
ATATATATATATATATATATATGTGATGACAGTTTGGGACACCTAGGTGCTC-AGGCTCCTTGCCTTTCCATCATTTGAT
TGTATTTAGATGCGTGCTATTGTGATAGATATATAAGGTAATCGGTCAATCCATTAGTAACTGCCAATTCTGAAGTAAAT
AGATTTAGAAACAATTATGACGTTTATTATTTAATGGATGTCATTAAGCACGCCATGCATGGTAACATATCTTTAGAAGG
-AAAAAATACTAAACATTAGGTATACGGATATTTATTTCATACATATATGAATTCATTTATTTAGTACGTACCCGATAGA
TTTTTATTCATATATACCCAGAATATTTGGTATGTACATATTAGATTTTTATCTATGTATATATCCAGAATATTTATTAC
GTACCAATTAGATTAGGTGTGTACGGATTTGTTTATTTGGTACACAGTCGTTAGAT--TTTTTTAGTATCTATATACCTA
GAATATTTAGTATGTAACGCATTATATTTTTTGTGTA-
>chr4B_1
AGCGAAAGATCGTCTGAAGACGCTCACGGACCTAATATAGTGTTTGCCTACGACTTGATGAGAGTGAAGCAAGACTATCA
ACTCCC---------------ATTTGGGAATAGAGATAACTTGAATAATAATAGTACATACAATTTGGAAAGATGTGTAA
TAAATAGTAGGTGATTATCCACCTAATTATTAATAACTTTTTTTGCATGGTAATTGATAACAACTCTTTTTTTGCGGGAA
AGTAATTAATAATAACTTTTTTTGACTCGACAAATTAATAATAACTTGACAGCCCGCATTCATGTTTCGTCAGC------
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----------------------------------------------------GTATTTTGGATCTTTTTTCCAAAAGAAG
A--------TTAGCACGAGAGTACTCCCTCCGTCCGCGAATAAGTG--TACTTCTATATTTCATCCTAAGCCAAAGTTTT
AAACTTTTGACCAATTTTATGGAAAAGAATAGTAGCA---TATATGACATCAGATTGGCACATTACGAACTTACATTTCA
AAACGAATCTAGTGATACTAATTTAGTGCCATACATGATGCTACTCTTTCCTATAAAGTTAATCAAAGTTTTTAAAAACT
TGACTTGAGACAAAAGCGGCATGAACATTTATTCGTGGAT-GGAGGGAGTAACTAAGTATAGAAGGATATTAATGATTAT
GCATATCCAGTCTGGTGGTGAT-------------TATCAAGGAATGCTTGATCTTTTTGCAAGGGAATACTCTCTCCCT
CTTTATTGCTCTTTGTCTATATA---TAGAGCAAGGATTAATAAT-----------------------------------
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--------------------------TAATCTGTCTTCCTTTTCTCC----------------------TATGCCTTCCG
ATAATCTAATGTGTTTCGCGTGTTTTGCATTCATATATGCATAGGTGAAGGAATGATCATGGAGGTGGATAATGG---TG
GTAAGGG------GAAGGAGAAGATCAGCTTACCATACGGGTTGTGCGTCCATAAAAAGACAGTTGACCCCTGCTATTAT
CACCACTTGTGCTACTGCTGCGGTCTCACCAATGTCTGCCATGCTACACTCGATGAATGCAAGCAAGATTGCAAATAATA
TATACTAGAACATGAAGGCGCGCGTTGCTGCGCCCGTCTATCCTGATGAAAGTTCAATATTTTTCTT---AATAAAACAA
GCAATAGAGGTGAAAATTTGAATAATTGGTCAATATTGCCTCATTTTATTGCAAGGAATACAACATATTTGGAATAACAT
TACAGAAGAGCTAGTTCAAACTGTTGTCAAATATCTTTATCTAAGTCAACTTGTAGGAGATCTACAAATCCTTTGCTCAC
GCATAAGACACAAGGCAGAGAAAGAAAACATTAAAAACATGACACAAGGCGGAGAAAGAAAACATTAAAAACATGGCGAG
AAAAGATTATAAGCTGTGGAATCTATAATTCGAAGTCAAAGTACCAGATTTGGTATTTGAACAACTGTATGATCTATAAT
TCAAAGTCAAAGTACACCTACAGATTTTGGTA------------------------------------------------
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>chr4A_1819
ATATAT--------------------------------------------------------------------------
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--------------------------------------------ATATATATATATATATATATATATATATATATATAT
ATATATATATATATATATATATAGGATGGCAGTTTGGGACACCTAGGTGTCCAAGGCTCCTTGCCTTTCCACCATTTGAT
TGCATTTAGATGCGTGCTATTGTGATAGGTATATAAGTTAATCGGCCAATTCATTAGTAACTGCCAATTCTGAAATAATT
AGATTTGGAAACAATTATGACGTGTATCATTTAATGGATGTCATTAAACACGCCATGCATGGTACCATATCTGTAGAAGG
-AAAAAATACTAAACATTAGGTATACGAATATTTATTTCATACATGTATGAGTTCATTTA-----------CCTGTTAGA
-TTTTATACATATATATCGAGAATATTTTGTATGTACGTATTAGATTTTTATCTATGTATATACCCAGAATATTTATTAT
GTACCAATTAGATTAGGTCTGTACGGATTCGTTTATTTGGTACACACTCATTAGAT--TTTTTTAGTATCTATATACCTA
GAATATTTAGTATGTAACGCATTATATTTTTTGTGTA-
>chr6A_1819
ATATAT--------------------------------------------------------------------------
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--------------------------------------------ATATATATATATATATATATATATATATATATATAT
ATATATATATATATATATATATAGCGTGGCAGGTTGGGACACCTAGGTGCCC-AAGCTCCTTACCTTTCCACCATTTGAT
TGTATTTAGATGCGTGCTATTGTGATAGGTATATAAGGTAATCGGTCAATCCATTAGTAACTGCCAATTCTAAAGTAAAT
AGATTTGTAAACAATTATGACGTTTATCATTTAATGGATGTCATTAAGCATGCCATGCATGGTAACATATCTTTAGAAGG
-AAAAAATACTAAACATTAGGTATACGGATATTTATTTCATACATGTATGAATTCATTTATTTAGTACGTATCTGTTAGA
TTTTTATTCATATATACCCAGAATATTTGGTACGTACATATTAGATTTTTATCTATGTATATATCCAGAATATTTATTAC
GTACCAATTAGATTAGGTGTGTACGGATTCGTTTATTTGGTACACAGTCGTTAGAT--TTTTTTAG--------------
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>chrUn_1819
ATATAT--------------------------------------------------------------------------
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--------------------------------------------ATATATATATATATATATATATATATATATATATAT
ATATATATATATATATATATATAGGATGGCAGTTTGGGACACCTAGGTGTCCAAGGCTCCTTGCCTTTCCACCATTTGAT
TGCATTTAGATGCGTGCTATTGTGATAGGTATATAAGTTAATCGGCCAATTCATTAGTAACTGCCAATTCTGAAATAATT
AGATTTGGAAACAATTATGACGTGTATCATTTAATGGATGTCATTAAACACGCCATGCATGGTACCATATCTGTAGAAGG
-AAAAAATACTAAACATTAGGTATACGAATATTTATTTCATACATGTATGAGTTCATTTA-----------CCTGTTAGA
-TTTTATACATATATATCGAGAATATTTTGTACGTACGTATTAGATTTTTATCTATGTATATACCCAGAATATTTATTAC
GTACCAATTAGATTAGGTCTGTACGGATTCGTTTATTTGGTACACACTCATTAGAT--TTTTTTAGTATCTATATACCTA
GAATATTTAGTATGTAACGCATTATATTTTTTGTGTA-
>chr2A_1830
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--------------------------------------------------ATATATATATATATATATATACATACATAT
ATATATATAC--ATATATATATAGGATGGCAGTTTGGGACACCTAGGTGCCC-AGGCTCCTTGCCTTTCCACCATTTGAT
TGTATTTAGATGCGTGCTATTATGATAGGTATATAAGGTAATCGGTCAATCCATTAGTAACTGCCAATTTTGAAGTAAAT
AGATTTGGAAACAATTATGACGTTTATCTTTTAATGGATGTCATTAAGCACGCCATGCATGGTAACATATCTTCAGAAGG
AAAAAAATACTAAACATTAGGTATACGGATATTTATTTCATACATGTATGAATTCATTTATTTAGTACGTACCTGTTAGA
TTTTTATTCATATATACCCAGAATATTTGGTACGTACATATTAGATTTTTATCTATGTATATATCCAGAATATTTATTAC
GTACCAATTAGATTAGGTGTGTACGGATTCGTTTATTTGGTACACAGTCGTTAGATT-TTTTTTAGTATCTATATACCTA
GAATATTTAGTATGTAACACATTATATTTTTTGTGTA-
>chr1A_1874
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--------------ATATATATAAGATGGCAGTTTGGGACATCTAGGTGCCC-AGGCTCCTTGCCTTTCCACCATTTGAT
TGTATTTAGATGCGTGCTATTGTGATAGGTATATAAGTTAATCGGTCAATCCATTAGTAACTGCCAATTCTGAAGTAAAT
AGATTTGGAAACAATTATGACGTTTATCATTTAATGGATATCATTAAGCACGCCATGCATGGTAACATATCTTTAGAAGG
-AAAAAATACTAAACATTAGGTATACGGATATTTATTTCATACATGTATGAATTCATTTATTTAGTACGTACTTGTTAGA
TTTTTATTCATATATACCTAGAATATTTGGTACGTACATATTAGATTTTTATCTATGTATATATCCAGAATATTTATTAC
GTACCAATTAGATTAGGTGTGTACGGATTCGTTTATTTGGCACACAGTCGTTAGATTTTTTTTTAGTATCTATATACCTA
GAATATTTAGTATGTAACGCATTATATTCTTTTGTGTA
>SNPs
-----------S--------------S--S-S---------------------S------S----------------S--
------SSSSSSSSSSSSSSS----S---S---------------S----S----------------------S------
S--S---S-------S-------------S-------------------------S----S-----------S-S-----
----------S--------------------------------------------------------------SSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS----------------------------
-SSSSSSSS-----------S--------SS--------------SSS---------S---S--------SS--------
-----------S--S------S------S-----S--SSS----S-------S-----S------S---S----------
------------------------------------------------S----S-------S------------------
-----------------------------------S----S---------------------------------------
---------S------------SSSSSSSSSSSSS------S---------------------------S----------
-S------S---S----------SSS--S-----------SSSS-SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSS---S---S---S---SSS-S-SSSSSSSSSSSSSSSSSSSSSS----------S
--------------S---------------S---S----------------------S---S-S-----------SSS--
------SSSSSSS---------------------------------------S-----S--S------------------
---S-S----------------S---------------S-----------------------------------------
----S------------------S--S-----------------S--------------SSSS-S--SSS-------S--
-S----------S--------------S-------------SS----------S--------------------------
-------------------------------------S--------S--------------S-S-------------S--
---------------------S-S----S--SS--SS-------------------------------------------
------------------------------SS-SSSSS------------------------------------------
--------------------------------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS------------------------------------
----------------------SS----S---------------------S--------------------S--------
----------------------------S---------------------------------------------------
------S--------------------S----------------------------------------------------
---------------------------------------------S---------------------------S-S----
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-----------------------------S--------------------------------------------------
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>forward_373
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---------------------------------CTCCCGCATACGTGACATGA---------------------------
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>reverse_1364
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---AAGTTGTGCTACTGCTGCGA---------------------------------------------------------
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>forward_1231
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-----------TGTCTCGCGTGTTTTGCATG-------------------------------------------------
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>reverse_2510
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-----------------------------TGTTTATTTGGTACACAGTCGTTAGA-------------------------
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