>input_sequence_75098
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----------ATGGCGGCGCCTCATCGTGCAAGCGCAGCCCGGCCGCTGCCACTTCTCGCGCCGCTCGTCGCCTTACTCT
TCCTCGCGGCGGCAACCACCACGGCAACAGCGGCCGCAGACGGTGTCCC---CACCGCCGCCGGCAACGGCGGCATGACG
CACCTCCACTTCTACTTCCACGAGATATACACCGCCGGGCCGAACGGCACGACGGCGGCTGTGGCGTCCCCGCCGGCGGG
CGCCGGCGGCTCGTCCTTCGGGTTCGGCTCCGTGACCGTGGTCGACGACATGCTCCGCGAGGGCGCCGACCCGGCGTCCC
GCCTCATCGGCCGCGCGCAGGGGCTCACCGCCGCCGCCTCGCTCTCGGAGGTGGCGATCACGACGCTGCTCAACTTCGTG
TTCACGGACGGGCCGTACAATGGCAGCACGCTGGCGATGTTCGGCCGCGCGCTGCTGGGCACGGTGATGGAGCGGCCGAT
CGTGGGGGGCACCGGCGCGTTCCGGATGGCGCGCGGGTACACGCACAGCCGGATGGTCAAGTCCGCGGACCCCGACAACC
AGCTCGTCCTCGAGTACGACGCCTACGTCCTCCACTAG------------------------------------------
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>chr1D_1_TraesCS1D01G265300
GGAGGATAATTGTAGGTTTGCTTAGAATTGAAACTACAACCACAAGTTGTTGCTGAAAAAATAGATGTACTCCTATTTGT
TTTAGGATTGATAACTGGATGCATTGTCGTGCGACTCCATGGAGCGACCAGGGCAAGGGAATCTTCGGTTATTATGGGTT
AG--GGTTTTTTAGTCCTCGCCGGTGCGACGCTTGGGCAGATGGAGACTCTTCTTCTTTGAGTTTGTCTTCCGGGCTCCG
GTCCTTCTCAAGTTCGTCCGTCTGGATATAGTCAACGGAGTATCGGCGTAGATTCATGCCGTTTACTT-GGGCAGTCAGG
TTATGGTTTCTTGTCATGTGACAAGGTTTGGTGTCAGGTTCTTCGGACCTATGCAAGGGTTCAACAACGACAACTGCGGC
TCCAGGGCGTTGGTTCTAAGCACATGCATGT---AGACTTCTCGTATGCCATCGACAAGGTTAAGCCGACTCCGGTAGGG
GAGCGGTGACAGCGGCGTCGGCGGCTTGTTCTGGCGGCAGTACTGCAGTAGTGGTCATTCAGTGGTCTCGAAGTATTGA-
----------------------------GTACTTCCAATGAACTTTTACAATAGATCTAATCTTTTTCGCG--GAAAAGG
GGAAATTGATGGCCTTACAGCTTGGAGGGGT--TGGTGTCAGAAAGGATTGCACGTTGGCTCCCATTTTCCTTCCGTT--
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-----------------------------------------------------------TTGAACAGTTGTCATCGATTT
TCAGATTTTCAACACATAATCATTCAAGTTGTTGCTCAGAA-------TTGAAGCTGCACCTACAAGGTGCTGCCGAGAA
AATACTATTTTTGGTTTTGCAAAACAGCATAAATTA---------CTAGTAGTTGGTGTCACGATGGGATTTTGAACATT
GACTTCCCTTTTTATTTTCCTTCCGACGGTTGACTCTCATTTTTCAACAGAC-------AATCATCCAAGCTGTAGTT-C
ATTCCTACAACTACAAGAACACACACCATGGATGATGGATGCATCCAGCAACTCAGCGTTATCACCACATCTTCTC----
--GCCTGCTCATGGCGGCGCCTCATCGTGCAAGCGCAGCCCGGCCGCTGCCACTTCTCGCGCCGCTCGTCGCCTTACTCT
TCCTCGCGGCGGCAACCACCACGGCAACAGCGGCCGCAGACGGTGTCCC---CACCGCCGCCGGCAACGGCGGCATGACG
CACCTCCACTTCTACTTCCACGAGATATACACCGCCGGGCCGAACGGCACGACGGCGGCTGTGGCGTCCCCGCCGGCGGG
CGCCGGCGGCTCGTCCTTCGGGTTCGGCTCCGTGACCGTGGTCGACGACATGCTCCGCGAGGGCGCCGACCCGGCGTCCC
GCCTCATCGGCCGCGCGCAGGGGCTCACCGCCGCCGCCTCGCTCTCGGAGGTGGCGATCACGACGCTGCTCAACTTCGTG
TTCACGGACGGGCCGTACAATGGCAGCACGCTGGCGATGTTCGGCCGCGCGCTGCTGGGCACGGTGATGGAGCGGCCGAT
CGTGGGGGGCACCGGCGCGTTCCGGATGGCGCGCGGGTACACGCACAGCCGGATGGTCAAGTCCGCGGACCCCGACAACC
AGCTCGTCCTCGAGTACGACGCCTACGTCCTCCACTAGCA----------------------------------------
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------------------------------------------------------------------ACCATAATTTGCTT
CGTGGTCTTTGATTCGTACTGCGTGTTATTCTGGTTTTTAAATTCAAAACTCTACATGTTTTTCCAATGCTTTCTGT---
---AAATTTATTTGTAGGCTTTGAGCCGAATCCCGAACATTTGTGCGCTTGCACTTGAAACATGAACATTTCTTGTTTGA
TA-----TATTACACGTAAGTATCACTCCCTGTGCCCTA--AAGTTGGGTTCCTCTTGGTGCATGTATTCACTACAGTAC
AAGTGTGCCAACCTGTGTACATACAACAAAAGAACAACAGATCAGAAACTGAGCTCGTCGGCGAACGCCTTGGCCAGCTT
CTGGGAAGGGCTGAGGCTCCCGCCGCGGCTGATCCGGAGCGACTCGATCGACTTCTGGATCTCCATGGTCATGGCGCTGT
CCACGCTGCCCTGCGACAGCCGCCTGTGTGCCTTCTGCAGGTGCAGCTTCAGCGAGCTGGTGCTCAGCCCCACGTTCTTG
CCGCATATCGGGCACACCTTCATCTCCGGCCGCTTCTGCTGCCAGTCCATCGACGCCTTGCCGTGCAGTTTCTTGTCCAG
AGCTAGCAGGGCCTTGGCGAAGCCGTCGTTCGGTTGCGCACGGCGGTGTACTTTCTTTAGTAAGTTCCAGGCTTTCGCAA
GTGTGAAGCCCCTGAACAAAGTGTCATCTCAGTTTTTGTCTTGGAAGTGGGAAAGTACAAGGCACCAATGAGGATGTGAT
TCAACCAAATGCGGATGTGGCT-AGATAAGATTCTTACTTTCTGAGCATCAAGTAGGCAAGGACGACCGTGGCGCTCCGG
CTTTTCCCTTCAAAGCAATGGATGAGGACCTTACCCCCAACACGGTCGACCTGGTCAATAAAATCTGATGCTTCTTCAAA
AAGATCGCTGATGTTTGCATCATCATCATCACTAATCTGCACGAGATAACACGGTTAGTTTTCATCAACACAAAAAATAT
CAGAAATATATAATAGAGTACTAAAACCGTAAGTTGAC
>chr1A_3
--AGGATAATTGCAAGTTTGCTTAGAATTGAAACTACAACCACAAGTTGTTGCTGAG-AAATAGATGTTCTCCTATTTAT
TTTACTATTGATAATTGGGTGCATTGGCGTGCGACTCCATTGAGCGACGAGGGCAAGGGAATCTCCGGTTAGTAGTTTAG
GTTAGGGTTTTTGGTCCTCGCAGGTGCGACACTCGGACGGATGGCGGCGCCTCTTCTTTGAGTTTGTCTTCCAGGCTCCG
ATCATCCTTGAGTGCGTCCGTTTGGACGTAGTAGACGGAGTTTCAGCATAGATTCCCACCATCTTCTTGGGGCGGTGAGG
TTAGGGTTTCTCGTCATGTGACGAGATTTTGTGCCAGGTGTTTCAGATCTATGCAAGGGTTCAATGATTACGAATGTGCC
TTCAGGTCGATGGTCCTTAAGGGCATGTGCACAAAGACTTCTCGGCTGTCATCGACAAGGTCAAACCGACTCCAGTAAGA
GCGACGACATCGGCGCGTCGGCGGCTTGTTCTGACGACT--------GTAGTGGTCATTCGGTGGTCCCAGGATCTCAAT
ATATTTCTTATTATGTTTGAGATGCCATGTACTTCCAATGAACTTTTACA-TAGATCTGATCTTTTTGGCCAAGAAAAGG
TGAATTTGATGGCTTTTGGAGGGGACTAGTTGCTGGTGTCACGAAGGATTGCATGTGAGCTCCCATTTTTCTTTTGTTTT
TTAGAAATGCATGCTCTAGCCAATGCGATCAAAATACTGATCTGGTAGAAGACTTTTTGGCTTCGATACCATGTAGAAGT
GCATGCTCTAGCCAATGCAACCAAAATACCGATCTGATGGAAGACCTCTTGGCTTCGATACCATGTAGAAGTGCATGCTC
TATCCAGTGCAACCAAAAGACTGATATGATGCAAGACATCTTGACTTTGATACCATGTACAAGTGCATGCTTTAGCCAAT
GCAATCAAAAAACCGATCTGATGAAAAAGACTAGACAATACATTTATATGTCAGCACTATTGAACAGCTAACATCCAATT
TTAAATTC---------------TCAAGTTGTTGCTCAGAAGTCAGAATTGAAGCTGAAACCACACGGTGTTGCCGAGAA
AATAGCATCTTTGGTTTTGCAAAAGAGTAGTATAAATTACTAGTGCTAGTAGTTGGCGTCACGATGGGATTTTGAACATG
TACTTTCCTTTTTATTTTCCTTCCGACGGTTGACTCTCATTTTTTAACAGATATAGTATAATCATCCAAGCTGTTGTTCC
ATTCCTACAACTACAAGAACACACACCATGGATG-------CATCCAGCAACTCGGCATTATCACCACATCTTCTC----
--GGTCGCTCATG------------------------GCCCAGCCGCTACCATTCCTCGCGCCACTCGTCACCTTACTCT
TCCTGGCGGCGGCAACCACGACGGCAACAGCGGCCGCAGACGGTGTCCC---CGCCGCCGCCGGCAATGGCGGCATGACG
CACCTCCACTTCTACTTCCACGAGATATACACCGCCGGGCCGAACGGCACGACGGCGGCGGTGGCGTCCCCGCCGGCGGG
CGCCAGCGGCTCGGCCTTCGGGTTCGGCTACGTGGGCGTGGTCGACGACATGCTCCGCGAGGGCGCCGACCCGGCGTCCC
GCCTCATCGGCCGCGCGCAGGGGCTCACCGCGGGCGCCTCGCTCTCGGAGGTGGCAATCACCACGTTGCTCAACTTCGTG
TTCACGGACGGGCCGTACAACGGCAGCACGCTGGCGATGTTCGGCCGCGCGGTGCTGGGCTCGGTGATGGAGCGGCCGAT
CGTGGGGGGCACCGGCGCGTTCCGGATGGCGCGCGGGTACACGCACAGCCGGATGGTCGAGTCCGCGGACCCCGGGAACC
TGCTCGTCCTCGAGTACGACGCCTACGTCTTCCACTAGGAAATACGTACTCTACTGGGACGCGGAGTTTCTGCTCCCGAA
CTCATCTGCACCCACGTTGACAACACATCAAATTATCTATCACACAAAAAATAGATTTTTTTGAAATTTTTTTAGTATTT
GTTTTGATTTTTTTCGGACCAGGAGCATATCAGCCTGGGCACCGAGTTGAATTTCCGTACTCTACTACCTTAATTTGCTT
GGTGGT-TTCGATTCGTACA---TGTTATTCTGGCTTT--AATTCAAAAGTCTACATGTTTTCTCTTTCCTCAGCACAAA
TGGAAATTTATTTGTAGGCATTGATCCGAATCCCGAACATTTGT--------ACTTGAAACATGAACATTTCTTGTTTGA
TACTGTATATTACACCTGAGTCTCACTCTCCT---------AAGTTGGGTTCCTCTTAGCGCATGTATTCACTACAGTAC
AAGTGTGCCAACCTGTGTACATACAACAAAAGAACAAGAGATCAGAAGGTGAGCTCGTCAGCGAACGCCTTGGCCAGCTT
CTGCGAAGGGCTGAGGCTCCCGCCGCGGCTGATCCGGAGCGACTCGATCGACTTCTGGATCTCCATGGTCATGGCGCTGT
CCACGCTGCCCTGCGACAGCCGCCTGTGCGCCTTCTGCAGGTGCAGCTTCAGCGAGCTGGTGCTCAGCCCCACGTTCTTG
CCGCATATCGGGCACACCTTCATCTCAGGCCGCTTCTGCTGCCAGTCCATCGACGCCTTGCCGTGCAGTTTCTTGTCCAG
AGCTAGCAGGGCCTTGGCGAAGCCGTCGTTCGGTTGCGCGCGGCGGTGTACTTTCTTTAGTAAGTTCCAGGCCTTCGCAA
GCGTGAAGCCCCTGAGAAAAGTGGCATCTTAGTTTTAGTCTTGGAAGTGGGAAAGTATACGGCAT---------------
-----CAAATGCAGATGTGACAAAGCTAAAATTCCTACTTTCTGAGCATCAAGTAGGCAAGGACGACCGTGGCGCTCCGG
CTTTTCCCTTCAAAGCAATGGATGAGGACCTTACCCCCAACACGGTCGACCTGGTCAATAAAATCTGATGCTTCTTCAAA
AAGATCGCTGATGTTTGCATCATCATCATCACTAATCTGCACAAGATAGCACAGTTGGTTTTCCATCAATAC-AAAAAAT
CAGAATTATATAACACAGTACTAAACCAAAGGTTGAC-
>chr1B_813
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------------------------------------------------GTAGTTGGGGTCACGATGGGATCTTGAACATG
GATTTTCCTTTTTATTTTCCTTCCGGCGGTTGACTCTCATTTTCTAACAGAC-------AATCATCCAAGCTGCTGTTCA
ATTCCTACAACTACAAGAACACACACCATAGATG-------CATCCAGCAACCCAGCTTTATCACCACATCTCTGCTTCT
CGGCTTGCTCATGGCGGCTCCTCATCGTGCAAGCCCAGCCCAGCTGCTACCATTCCTCGCGCCACTCGTCGCCTTACTCT
TCCTCGCGGCAGCAACCACCACGGCAACAGCGGCGGCAGATGGTGGTGGGTACGCCGGCAACGGCAACGGCGCCATGACG
CACCTCCACTTCTACTTCCACGAGATATACACCGCGGGGCCGAACGGCACGGCGGCGGCGGTGGCGTCCCCGCCGGCGGG
CGCCAGCGGCTCGGCCTTCGGGTTCGGCTACGTCGGCGTGGTCGACGACATGCTCCGCGAGGGCGCCGACCCGGCGTCCC
GCCTGATCGGCCGCGCGCAGGGGCTCACCGCGGGCGCCTCGCTCTCGGAGGGGGCGATCACGACGCTGCTCAACTTCGTG
TTCACGGACGGGCCGTACAACGGCAGCACGCTGGCGATGTTCGGCCGCGCGGTGCTGGGCTCGGTGATGGAGCGGCCGAT
CGTCGGGGGCACCGGCGCGTTCCGGATGGCGCGCGGGTACACGCAGAGCCGGATGGTCAAGTCCGCGGACCCCGAGAACC
TGCTCGTCCTCGAGTACGACGCCTACGTCCTCCACTAGCA----------------------------------------
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------------------------------------------------------------------ACCTTAATTGGCTT
CGTGGTCTTTGATTCGTACTGCGTGTTATTCTGGTTTTTAAATTCAAAACTCTACATGTTTTTCCAATGCTTTCTGTATT
CTGT-ATTTGTTTGTAGGCTTTGAGCCGAATCCCGAACATTTGTGTGCTTGCACTTGAAACCTGAACATTTTCTTGTTTG
------ATATTACACCTGAGTCACACTCCCTGTACCCTAAAAAGTTGGGTTCCTCTTGGGGCATGTATTCACTACAGTAC
AAGTGTGCCAACCTGTCTACATACAACAAAAGAACAACAGATCAGAAGGTGAGCTCGTCGGCGAACGCCTTGGCCAGCTT
CTGGTAAGGGCTGAGGCTCCCGCCGCGGCTGATCCGGAGCGACTCGATCGACTTCTGGATCTCCATGGTCATGGCGCTGT
CCACGCTGCCCTGCGACAGCCGCCTGTGCGCCTTCTGCAGGTGCAGCTTCAGCGAGCTGGTGCTCAGCCCCACGTTCTTG
CCGCATATCGGGCACACCTTCATCTCAGGCCGCTTCTGCTGCCAGTCCATCGACGCCTTGCCGTGCAGCTTCCTGTCCAG
AGCAAGCAGGGCCTTGGCGAAGCCGTCGTTCGGCTGTGCGCGTCGGTGTACTTTCTTCAGTAAGTTCCAGGCTTTCGCAA
GCGTGAAGCCCCTGAAAAAAGTGTCATCTTAGTTTTTCTCTTGGAAGTGGGAAAGTATAAGGCAT---------------
-----CAAATGCAGATGTGGCAAAGCTAAAATTCTTACTTTCTGAGCATCAAGTAGGCAAGGACGACCGTGGCGCTCCGG
CTTTTCCCTTCAAAGCAGTGGATGAGGACCTTACCCCCAACACGGTCGACCTGGTCAATAAAATCTGATGCTTCTTCAAA
AAGATCGCTGATGTTTGCATCATCATCATCACTAATCTGCACGAGATAGGACGATTGGTTTTCCATCAATAT-GAAAAAT
--------------------------------------
>SNPs
SS----------S-S-----------------------------------------SS----------S---------S-
----SS--------S---S-------S-------------S-------S---------------S------S--SSSSSS
SS----S-----S--------S--------S--S--S-S-----S-S-S-S---------------------S-------
S--S-S--SS---S-------S----SS----SS-------S--S--S-------SSS--S-S-S--------S--S---
---S-------S----------S--S---S---S-----SS---S--S----------------SS-SS--S-S--S-S-
-S----S--S----S--S-SSSSSSSSSSSS-------------SS--S------------S--S--------S---S-S
-S-SS-SS-SS-SS-------------------S--S-SSSSSSSSS-------------S------S-SSSS-S-SS--
--------------------------------------------------S-------S--------S--S---------
S---S--------S--SSSSSSS-SSSS-S-----------SS----------S--SS-----------S---SS-----
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-------------------------------------------------------------------S-SS----S-S--
-S-S---SSSSSSSSSSSSSSSS----------------------------------S-S-S---S----S---------
----SS--S---------------S--S-SS-SSS---------------------S----------------------S
-----S--------------------------------------S-----------------------------S-----
----------------------------------SSSSSSS----------------S----------------------
----S-------------S---------------S------S------S---S-S--------S----------------
-----------------------------------------------------S--------------------------
-----------------------------------------------------------S--------------------
----S--------S---------------S----SS--------------------------------------------
-------------------------------S-S----------------------------------------------
--------------------S------------------------------S--------S-------------------
---------------------------------------------------------------------------S----
S-------------------------------------------------------------------------------
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---------------------------------------------------------------------S----------
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---------------------------------------------S----------------------------------
---------------S-S---S-----------S-------------------------S--------------------
-----------------------------------------------SS-------------------------------
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----------------------------S---------------------------------------------------
--------------------------S-----------------------------------------------------
---------------------------------------S----------------------------------------
-S--------------S------------S---------------------------S------SSSSSSSSSSSSSSSS
SSSSS-------S--------S---S---S--------------------------------------------------
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------------------------------------------------S-------S------SSSS-SSSSS----S--
-----S-------S-S---------S-SSSSSS-SSSS
>forward_474
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------------------------------------------------------ACAAGGTTAAGCCGACTCCG------
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>reverse_2884
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---ACCAAATGCGGATGTGGCTA---------------------------------------------------------
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