>input_sequence_80649
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------------ATGCGCGTGGTGCACCGGGACGAGGAGGGCCACAAGGTGGCGGAGAAGGTGCCGGTCCCGGAGACGAG
GCGCCCGGACACGGCGAGGCACGTGGAGCGCAAGCTGGAGGAGCAGGGGCTGCACCGGCTGGAGCGCCACCCGGCCAACG
CGCCCCGGGGCGTCGGCATCGGCGCGCCCCCGCCCAAGTCCGGCCGCGGCGGCAAGTACACCTGGGAGGGCCCCGAGGGG
CTCGTCGACAGCGAGCTCGACCCCGCGCCCGCCGCCATCGACCGCAACGACCCCAACTACGAGGAGGAG---------GG
GGAGCAGGACGAGGTGGCCGAGGAGGTGGTCGTCGGGGAGGTGGAGGTCGCCAAGGTGGCCCAGGCCCGGGCCGGCGTCG
CCAGGGTCGAGGTCGCGCCGCCGCTCCTCCAT------GACCACCAGCAGTAG---------------------------
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>chr1D_1_TraesCS1D01G424500
AACTCTTTTTTGAATACATGGTAACATTTTTTTAAATAGATGTAGTACATTATTTAAATGGCAATAGATATTTTTGTAAA
ACTACGCAAACATTGTTTTACATTTTATAATACTATTGAAATTTCCACATACATTATCAGGAAACATGCATATATTTCTG
TAAAATTTCACGATACATATTTTATGGAAATAAACATTTTTAACCTAAGTGAACATTTTTTCCTTGTACATAACATTTTT
AAACGCCACAAAGATTTTTTTTTTGAAACGCGGTAATGTTTCCATCAAA-GCGACGTTCAGTTTTCGAGTAGCATGTTAT
ATTTTTTTTTACATTGCAAAAAAA-TTCTTTACATTGTACACATATTTTTTGAAAAAAATCGTATAAATTTTTGGAAAAC
CGGAAATATTTTTC-CATAGTCACGAACATTTTTTAAAGTTATCCACATTTTGTA-AAGCTGTGCTAACAAAACTTTTAT
ACTGTATTGATATTTTTTCGGTTCATGTTTCTAAAGTTTATAAGTAAATTTTAGTTTATTAATGTATGCA-----TTTAA
TTTTA--ATATATAAAGAAAAAAACCAGATGATGCCAGCATGAGATCACAGATCAGCAGGACAAGTCAC--GTTCTGTAG
GCGAGGCGTGCGCCTCGCAGTAGGACCCCAACGGCGGTGAACGTCGCGTCACGAGCATATT-AGCGTGGC----------
---------------TCCTCGCGCCCGTC----TAGATGTTGCCTTCCGCTTCCGCCACCTTCCATCACTCTCTAGACTC
CTCCCCAACCTTCCACCGCTCACGCACTCTCTAGACTCCTCCACCGCCACCTCACCCAAGCCCGCCGGCTTCCTACATAA
GCCCCGCCGCTGCGCCGTGTCGCTCTCCCCCATCACATCCATAT--------CCACCCACACAGCGCGACTCAGAGTTCC
ACAG-ACCAACAACAGGAGAGCTCAGCTCAGCTCAAGCAGCCGAGCCGGCCGACCGACCAGCAAGGAAGGCCACAAGAAG
AAGATGGCGCACATGCGCGTGGTGCACCGGGACGAGGAGGGCCACAAGGTGGCGGAGAAGGTGCCGGTCCCGGAGACGAG
GCGCCCGGACACGGCGAGGCACGTGGAGCGCAAGCTGGAGGAGCAGGGGCTGCACCGGCTGGAGCGCCACCCGGCCAACG
CGCCCCGGGGCGTCGGCATCGGCGCGCCCCCGCCCAAGTCCGGCCGCGGCGGCAAGTACACCTGGGAGGGCCCCGAGGGG
CTCGTCGACAGCGAGCTCGACCCCGCGCCCGCCGCCATCGACCGCAACGACCCCAACTACGAGGAGGAG---------GG
GGAGCAGGACGAGGTGGCCGAGGAGGTGGTCGTCGGGGAGGTGGAGGTCGCCAAGGTGGCCCAGGCCCGGGCCGGCGTCG
CCAGGGTCGAGGTCGCGCCGCCGCTCCTCCAT------GACCACCAGCAGTAGGAGCTGATCGTGTGCGTG----TGCGT
CGTGTTGATCTTCGTTTCCT----CTGTGCTCTGCT------TACCATGCATGTGTGTAACAAAACAAAAGATAATAATC
AAGCCTGGAAGTGGATCAGTTAACCTCTGTCAT----CATCCCTCTGGTTTCTTCTGTCAGATCATCATCATCCCCTGGT
GTTACCTTATGTGTCAGCAGCTTTCCTCTGATTTCTTCTATACATGGTAATTGCAACAGGCCAAATAAATAAATTGCAAA
GTAATAACAGTGAGAAAATTGGGTGTGCAAGACATTTTCGATCAGATCAAGAAAATACGTGCAGTGCAGAAGCAGAGGAA
CCAGATTGCTGACCTGAATATGATATGAATAGGAGGATGATTCACTTGTAACGTATAAGATTGCTGACCTGAATATGAAT
AGGAGGACTTGTAACGTATGACTTGTGTCTGCAGGAACAGAGTTTGTTTCTGATTCTTCCTCCACTGATTTTGTGCTTTG
ATGTCTTAAGGAGTGAGTGTGCTTCCATAACCGATTTCAAGCGGCGGCCCCAACACTACGAGGGAATGGGTAATACCTAA
AAGTGTGCCAACAGCCAGAGCATACATGGAACTCTTGAGTGTCTGATGGGCAAATTGCCCACTGTTAGCACAAACCTCTC
ATCTAACAATTAAACATAGTCGAAAACACAAGTCTAGATGTGTCTAGGAATGAGATAATTTTGTTCAGAATTCCACATGG
CAGAAAGGTCTCTCCTAGAAGGTTAACCATATCCACAGAGGCACACACGTACGGTCAGAGTAGAGTTCTCTTCATC----
AGCACTTGGCATAATTCAGACTACCACAGCTCGCGGAG-------GGGGAATTTCAGCTTTTGGAGATTGCGGAAGAAGA
GGGTAATATAGACA-GGGGGGATGGGGAGAGATAAGAGTCTTTAGGGCTTCTC----CCAACGCAATGTGATCCCTTCCA
AGATATTAAGTGGTATAAGTTCACTTTATTTATTGCCAAAACAGATG
>chr1A_1
AACCCTTCTTTGAATACCTGGTAACATTTTTTCAAAACACGTG-GTACATTATTTAAATGGCAATAGACATTTTTGTAAA
ACTACGCAAACATT-TTTTACATTTTATAATACTTTTGGAATTTTCACAATCATTTTTGGGAAACATACAAATATTTCTG
TAAAATTTCACGATACATATTTTATGGAAATAAACATTTTTCC------------------CCTTGTACATAACATTTTT
AAATGCCACAAACATTCTC-TTTTGAAACATAGGTATATTTCCATCAAATGCGAGCTTCATTTTTTGAGTGGCACGAAAC
AGTTTTCTTACATTACGCGAATATTTTCTTTACATTGTATACATATTTTTTGAAAAAAAACGCATATGTTTTTTGAAAAG
CGGAAATATTTTTTGCATAGTCACGAACATTTTAAAAAGTTATCTACATTGTTTAGAAGATGTGCTAACAATC--TTTAT
ACTGTTTAAACATTTTTCAGATTTATGTTTCTAAAGTTTATAAGTAAATTTTAGTTTATGAATGTATGCA-----TTTAA
TTTCAGTAAAAAAAAGTAAAAAATTCAGATGATGCCAGCATGAGACCACAGATCAGCAGGACAAGTCAC--GTTCAGTAG
GCGGCACATCACCTAGCCGCACCCCAATGT----CGGTGAATGTCGCGTCACGAGCATATT-AGCGTGGCGTGGCGTGGC
GGTA-------CCAGTCCTCGCGCCCGTCACTCTAGATGTCGCCTTCCGCTTCCGCCACCTTCCATCACTCTCTAGACTC
CTCCTCACCCTTCCACCGCTCACGCACTCTCTAGACACCTCCATCGCCACCTCACCCAGGCCCGCCGGCTTCCTACATAA
GCCCCGCCG-------------CTCTCCCCCATCACATCCATATCCTGATATCCACCCACACAGCGCGACTCATAGTTCC
AGACCAACAACAACAGGAGAGGAGAGCTCACAAGAT--------------------------------------------
AAGATGGCGCACATGCGCGTGGTGCACCGGGACGAGGAGGGCCACAAGGTGGCGGAGAAGCTGCCGGTGCCGGAGACGAG
GCGCCCGGACACGGCCAGGCACGTGGAGCGCAAGCTGGAGGAGCAGGGGCTGCACCGGCTGGAGCGCCACCCGGCCAACG
CGCCCCGGGGCGTCGGCATCGGCGCGCCCCCGCCCAAGTCCGGCCGCGGCGGCAAGTACACCTGGGAGGGCCCCGAGGGG
CTGGTCGACAGCGAGCTCGACCCCGCGCCCGCCGCCATCGACCGCAACGACCCCAACTACGACGAGGAG---GAAGGCGG
GGAGCAGGACGAGGTGGCCAAGGAGGTGGTCGTCGGGGAGGTGGAGGTCGCCAAGGTGGCCCAGGCCCGGGCCGGCGTCG
CCAGGGTCGAGGTCGCGCCGCCGCTCCTCCAGGACCACGACCACCAGCAGTAGGAGCTGGTCGTGTGCGTGCGTGTGTGT
CGTGTTGATCTTCGTTTCCTTGCTCTGTGCTCTGCT------TACCATGAATGTGTGTGTAACAAT---AGATAATAATC
AAGCGTGGAAGTGGATCAGTTAACCTCTGTCATGATGCATCCCTCTGGTTTCTTCTGTCAGATCATCATCATCCCTTGAT
GTTAGCTTATGTGTCAGAAGCTTTCCTCTGATTGCATCTA----------------------------------------
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>chr1B_501
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------------------------ATGTTTCTAAAGTTTGTAAGTAAATTTTAGTTTATAAATGTATCCGTTTATTTTTA
AATAA--AAATAAAAATAAAAAATTCAGATGATGCCAGCATGAGATCACAGATCAGCAGGACAAGTCACACGTTCTGTAG
GCGGCACA-----TAGCCGCACCCCAATG-------------GTCCCGTCACGAACATACTAAGCGTGGCGTGGCGTGGC
GTGGCGTTGGCCCAATCCTCGCGTCCGTC-CTCTAGATGTCGCCTTCCGCTTCCGCCACCTTCCATCACTCTCCAGACTC
CTCCCCAACCTTCCACCGCACACGCACTCTCTAGACTCCTCCATCGCCACCTCACCCGAGCCCGCCGGCTCCCTACATAA
GCCCCGCCGCTGCGCCGTGTCGCTCTCCACCATCACATC-------------CCACCCACACAGCGCGACTCAGAGTTCC
AGACCAACAGCTACAGGAGAGGAGAGCTCAC-------------------------------------------------
AAGATGGCGCACATGCGCGTGGTGCACCGGGACGAGGAGGGCCACAAGGTGGCGGAGAAGGTGCCGGTGCCGGAGACGAG
GCGCCCGGACACGGCCAGGCACGTGGAGCGCAAGCTGGAGGAGCAGGGGCTGCACCGGCTCGAGCGCCACCCGGCCAACG
CGCCCCGGGGCGTCGGCATCGGCGCGCCCCCGCCCAAGTCCGGCCGCGGCGGCAAGTACACCTGGGAGGGCCCCGAGGGG
CTCGTCGACAGCGAGCTCGACCCCGCGCCCGCCGCCATCGACCGCAACGACCCCAACTACGAGGAGGAGGAGGAAGGTGG
GGCGCAGGACGAGGCGGTT------------GTCGGGGAGGTGGAGGTCGCCAAGGTGGCCCAGGCCCGGGCGGGCGTCG
CCAGGGTCGAGGTCGCGCCGCCGCTCCTCCAGGAGCACGACCACCAGAAGTAGGAGCTGATCGTGTGCGTGCGTGTGTGT
CGTGTTGATCTTCGTTTCGT----CTGCGCTCTGCTTACCAATACCATGCATGTGTGTAACAAAAGATAA-ATAATAATC
AAGCGTGGAAGTGGATCAGTTAACCTCTGTCATCATGCATCCCTCTGGTTTCTTCTG-----------------------
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----------------------------------------------------ATTCTTGCTCCACTGATTTTGTGCTTGG
ATGTCTTAAGGAGGGAGTATGCTTCCATAACCGATTTCAAGCGGCCGTCGACACTGTAACGGGGGAGTGGCTC-------
----GTGCTAACAGCCAGAGCATACAGGGAACTCTCAA-TGTCTGACGGGCAAATTGCCCACTGTTAGCACAAACCTCTC
ATCTAACAATTAAACAGAGTCGAAA-CACAAGTCTAGATGTGTCTAGGAATGAGATAATTTTCTTC--------------
-AGAAAGGTCTCTCCTAGAAGCTTAACCATATCCACAGAGG----CACACACGGTCAGAGCAGAGTTCTTTCTCTTCAAA
AGCACTCGGGATAATTCAGACTACCACAGCTCGCGGAGAAACATAGGGGAATTTCAGCTTTTGGAGATTGCGGAAGAAGA
GGGTAATATAGACAGGGGGGGCTGGGGAGAAATAGGAGTCTTTAGGGCTTCTCTTCTCCAATGCAATGTGATCCCTGCCA
AGATATTAAGTGGTACAAGTTCACTTTATTTATTGCCAAAACAGATG
>SNPs
---S---S---------S--------------S---SSSSSSSS------------------------S-----------
--------------S-------------------S---S-----S----SS----S-SS--------S--S---------
-----------------------------------------SSSSSSSSSSSSSSSSSSSS-------------------
---S--------S---S-SS---------SSS-SS--S----------------SS----S----S----S---S-SS-S
-S----S--SSSS-SSSSS--S-S---------------S-------------------S--S---SS-----S-----S
-------------S-------------------SS---------S-----S-S------S-----------SSSS-----
-----S-SS-S------SS-S--S-----------------------------------S--------------------
---S----S---S---S------SS-------------------------------------------------------
---SSS-S-SSS-SSSS-SSSSSSSSSSSSSSSS-------S--------------------------------------
----------------------------------------S---------------------------------------
-------------------------------------------S------------------------------------
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-S-S--S--------------SSS------SSSS-SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
--------------------------------------------------------------------S-----------
---------------S----------------------------------------------------------------
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-------------------S------------------------------------------------------------
-------------------------------S---------------------------------------------S--
-----------------------------------------------------------------S-S------------
----S----------------------------------------------------------------------S--S-
----S------------S---------------S-S----SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS------S-------------------S-
-------------S----S--------------------------S-S-SSS--SS--SSS---S-SS--SSSSSSSSSS
SSSS----S-----------------S--------SS-S-------S---------------------------------
----------------S--------S------------------------------------S---SSSSSSSSSSSSSS
S--------------------S-------------------SSSS---SS----------S--------S-SSS-S----
------S--S----------------------------------------------------------------------
---------------------S--------S---S--------------------------S--------------S---
---------------S-------------------------------
>forward_1039
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-----------------------------------------------------------AGCAAGGAAGGCCACAAGAA-
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>reverse_2282
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-----------------------------------------CACACACGTACGGTCAGAGT-------------------
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