>input_sequence_70242
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---------------------------------------------------------------------ATATGCACTCA
TTGTCTAAATACACATTTTGCAAAGTTGAAAAATTCCGAACAAAAACCCCGCGTGTATATCCGAACATTCTATGTGCGCG
CACAAAGTTTTCGGTGTTTTGGCTCCTAGGTGCATATGCACCTATTGTTTAAATACACATTTTTAAAAGTTGAAAAATTC
GGAACAAAAATCCGGCGTTGGAGAGTTTGCCCACACGCCTGCACCACGCACG--------------------------TA
GATGTATCCA----------------------------------------------------------------------
-----------------------------ACAACATCCCATCTATTTGAAAGGTAACTGTTGAGGATGGCGTTCAAGTAC
CAGCTCATCCTCTGGGCCGCCCTGGTCATCGTACTCGCCGCGGCCTCAGCCAGCGTCCAGCAGGCATGCATTCCAGGGCA
GCAGATCACATACGACTCGCTTCATGCCTGCAGCGACTACGTGGTCAGACAAACATGTGGCTTTGAACCCTACTACGTCT
CCGTCGAGACGATGAAGAAGCGGTGTTGCGAGCAACTGTCGGGCGTCTCGTCGTACTGCCGGTGCGAGGTGGTGCGCATC
CTCATGGAGGGGATAGTAAATAAGCGGGGTGAGGTCGTGGGCAGCCTCCTCCAGGATTGGCCTAGATGCAAGAGCTTGAC
GAGGGAGTACATTGCGGGCATCGTCGGACGGGGGGAGTGCAACTTAGAGACCATCTTGGGCCGCCCGGAATGCCCTACTG
CCTATCTTGGAGCGGTCGTGTAACTTTATATATAGCTCTAGCGTGAATAAG-----------------------------
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>chr4D_1_TraesCS4D01G065800
CAGAACGCATCATGCTCCTGTTGGATGGCTTCTCGGGAAGCTGGTTATTCGGTGAAGCTAGCGACGTTCCAAACGGGACC
TTAATCCTTTGTCATTACCACGGGAATCCACATGTTGGCTAAGGCATCCTTTTAGTCTCCCACTTTTTAGTGGATGATGA
CAATGTGATTTATATTTGAATGCTTCTAAAAATGAATGTTTTTTATTAGATATGGAGTTTGCACCTCTAGATTTATGA--
-------TTTTTTTTACTTTTGAATGCAAAATGCACAAAATAATGTTGATAGAGGCCCTGTTATATATATTTATATTTCA
GGTGGATGGAAAGTGATCAAGATATCTAATAAGAACACACTTGTGTACTAACCAGCGAGTGAGACATGTCATCGAGCAAA
TACTAGAACTCACTTCACTAAAGTGCATGTGTGTGACATGGCATATGCATAACACACGTATGAGAACATCAGGAACACTA
ATGTTCTCTAATATGATGGATGGTTTTTAGGATCCATCCCATGAAGACGATTTCTATAAGATTGACTTGTACACACCGAT
TACATCCATATATTGGGTTCCAATATACCTTAGCTAATAATCTAGATTTATAAACTTTCTTTATCTGGTTACATGCTTGC
TGAATGCAAATAAAAAGGAATTTGGTTGGTTTAATAAGCAT--GATCTCCACACACAA--CCCAAATGAAAGTTCACTTA
-TTTTTTGAGTTCGAACGGAAGTTGACTAGAAGTGTTAGTGTTAGATGACATAAGAAGTACAAATGGAAGATTTTTTTTT
GCCATAAAGCTCCAAATTTTGCCATGTGTGTAATT-TTTTTCTCATCTGCTCACATTATTGCTGACCAGAAATAAAACAA
AATTCGGTTGGTTTAACAAGCATGATCTCGATCCACACAAACCAAATGGAAGTGTTAG--------------TGTTAGAT
CACATGAGTAGTAAATGTATAAGAAAAGAGTGCCATATAAACCGGAAATTGGCTATGGCTCCTAGGTGCATATGCACTCA
TTGTCTAAATACACATTTTGCAAAGTTGAAAAATTCCGAACAAAAACCCCGCGTGTATATCCGAACATTCTATGTGCGCG
CACAAAGTTTTCGGTGTTTTGGCTCCTAGGTGCATATGCACCTATTGTTTAAATACACATTTTTAAAAGTTGAAAAATTC
GGAACAAAAATCCGGCGTTGGAGAGTTTGCCCACACGCCTGCACCACGCACG--------------------------TA
GATGTATCCA----------------------------------------------------------------------
-----------------------------ACAACATCCCATCTATTTGAAAGGTAACTGTTGAGGATGGCGTTCAAGTAC
CAGCTCATCCTCTGGGCCGCCCTGGTCATCGTACTCGCCGCGGCCTCAGCCAGCGTCCAGCAGGCATGCATTCCAGGGCA
GCAGATCACATACGACTCGCTTCATGCCTGCAGCGACTACGTGGTCAGACAAACATGTGGCTTTGAACCCTACTACGTCT
CCGTCGAGACGATGAAGAAGCGGTGTTGCGAGCAACTGTCGGGCGTCTCGTCGTACTGCCGGTGCGAGGTGGTGCGCATC
CTCATGGAGGGGATAGTAAATAAGCGGGGTGAGGTCGTGGGCAGCCTCCTCCAGGATTGGCCTAGATGCAAGAGCTTGAC
GAGGGAGTACATTGCGGGCATCGTCGGACGGGGGGAGTGCAACTTAGAGACCATCTTGGGCCGCCCGGAATGCCCTACTG
CCTATCTTGGAGCGGTCGTGTAACTTTATATATAGCTCTAGCGTGAATAAGCTAGTTGCATCGATCGATGGATGAATCAC
ATACATGTATCTATGTGCATGCATGTGTGAAAAATAGCAACAAAGAGCATCCAAGGGCAATTGCAAAATAACACCATCCT
AGAGCCTATACTTTAATCTTATTATGTTAAGATGTGCTGTGGTTAATTAGCTACAAATATAGCTTCGGCCATAACGCAAA
CATGGTGTGCGCGGCACAGTAGGGTTTGATCCCCCTCGATTGGTGGCTACTATTTTTTTTTGCTTTTGAATGCAAAATGA
ACTAAGAGA-----------------------------------------------------------------------
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------------------------------------------------------------TTAGTGTTGAT--AGAGCTC
CCT-TATGTATTTATATTCCTGA-----CGGGTGCAAAGCGATCAAGATATCTAATAAGAACACACTTTTGCACTAACTA
GTGAGGGAGACATGTCATCGAGCAACCATGGCATATGAGTATGAGAACATCATCGTTCGTGAGTTCTC-AATATGCGATG
GACGTTTTCTTGCATACGTCCCATGAAGATGGTCTTCATATACTGGATTCCCTATATATATGTTAGCCAATCCAGGTGAT
ATTCTCATCTGCTTACATGATTGCTGACTGCAAAAAATAGGAACTTGGATG---GTTAGGTTTAGCGAGAATATGATCTC
CACACACAAACTAAAAGAAGGCTCATTTGGAGTATCGGTGTTAGACGTTTAACGAGCATATGACCTCCACACACAAACCA
A---AAGAAGTTC------------------------------------AGTATCAGTG-T--TAGATCACATGAGAAGT
AAACGTAGAAGAAAAGGATGCCGT-----------ATAAAGCTATTGGCCACGTATGATAAGATAACTCATGCCA--TTT
ATGCCGAGAAAGTTAGGAACCCAATGGCGGCAAATCTAGTCATTCTTTCACTCAAACCCCAACTTTTGTATTCCCCTCCA
AATTCTGTTGCCATAAAGCTCCAAATACTGTTATTGTAAAGATTAATTGGTAGGCCTTTCACCATACACGACATCGAAAT
TTCCATTCCGCGGGACTAC-AACGAGAGCAAAAGGCACATCCATAGTTAC
>chr4B_18
-----------------CTGGTGGCTGGCTTCTCAGGAAGCTGGTTATTCGATGAAGCTGGTGACGTTCCGAACGAGGCC
TTAATCCTCTGT-ATTGCCACAGGCATCCACAAATTGGCTAAGGTATCCTTTCAGTCTCCTACTTTTTAGTGGATGATGA
CAATGTGATTTATATTTGAATGCTTCTAAAAATGAATGTTTTTTATTAGATATGGAGTTTGCACCTCTAGATTTGTGAAT
TATTA----TTTTTTACTTTTGAATGCAAAATGCACAAAATAATGTTGATAGGGGCCCCCTTATATATATTTATATTCCA
GGTGGATGCAAGGTGATCAAGATATCTAATAAGAACACACTTGTGTACTAACTAGCGAGTGAGACATGTCATCGAGCAAA
TACTAGAACTCACTTCACTAAAGTGCATGTGTGTGACATGGCACATGCATAACACACTTATGAGAACATCAGAAACACTA
ATGTTCTCTAATATGATGGATGGCTTTCAGGATCCATCCCATGAACACGATTTCTGTAAGATTGACTTGTACACACCTAT
TACATCCATATATTGGATTCTGATACACCATAGCTAATAATCCAGGTGTATAAACTTTCCTTATCTGGTCGCATGCTTGC
TGATTGCATATAGAAAGGAATTTGGTTGGTTTAACAGGCATATGATCTCCACACACACAGCCCAACTAAAAGTTCACTTA
TTTTTTTGAGTTTGAATGGAAGTTCACTAGAAGTGT---------------------GTACAGATAGAAGAATTATTGTT
GCCATAAAGCTCCAAATTCTGCCATGTGTATAATTCTTTTTCTCATTTGCTCACATTATTGCTGACCACAAATAAAACAA
AATTTGGTTGGTTTAGCAAGCATGATCTCGACCAACACAAACCAAATGAAAGTAAGTGTTAGTG-----------TAGAT
CACATGAGTAGTAAATGTATAAGAAAAGA---------------------------------------------------
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---------------------------ATGGCATATGAAC----------------------------------------
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>chr4A_49
TCGGG-------------------------------------------------AAGCTGGCAACGTTCCGAACGGGACC
TTAATACTTTGTCATTACCACGTGAATCCACATATTGGCCAAGACATCCTTTCAGTCTCTCACTTTTTAGTGGATGATGA
CAACGCGATTTATATTTGAATGCTTCTAAAAATAAGTGTTTTT-ATTAGATATGGAGTTTGCGCCTCTAGATTTGTGAGT
TATTTAATTTTTTTTGCTTTTGAATGCAAAATGCACAAAATAATGTTGATAG----------ATATATATTTATATTCCC
GATGGATGCAAAGTGATCAAGATATCTAATAAGAACACACTTTTGTACTAACCAGCGAGTGAGACATGTCATTGAGCAAA
TACTAAAACTCACTTCACTAAAGTGCATGTGTGTGTCATGGCATATGCATAACACATGTATGAGAACATCAGGAACACTA
ATGTTCTCTAATATGATGGACAGTTTTTAGGATCTGTCCCATGAAGACGATTTCTATAAGATTGACTAGTACACACCGAT
TCCATCCATATATTGGGTTCCGATACACCTTAGCTAATAATCCAGGTGTATAAACTTTCCTTATCTGGTCACATGCTTGC
TGACTGCAA---------AATTTGGTTGGTTTAACAAGCATATGTTCTCCACACACAA--CCCAAATGAAAGTTTACTTA
-TTTTTTGAGTTGTAATGGAAGCTCACTTGAAGTGTTAGTGTTAGATTACATAAGAAGTAAAGATAGAAGATTAAGTGTT
GCCATAAAGCTCCAAATTCTGCCATCTGTATAATT-TTTTTCTCATTTGCTCACATATATACTGAGAGAAAGGAAGAGCA
ATAATCTTGCATCGTGAGTACTGATGTGTTTTTTTCTCTCGTCGGAGTGCTGTGGAATGGAGCTAATTAATCTTTTTAAT
AACAGTATTAGGAACTTTATAGCAACAGAATTTGGAGGGGAATGC-----------------------------------
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----------------------------------------------------------------AAAAGTTGGGGTTTGA
GTGCAAGAATGGTTTGATTTATTGCCACTGGTTTCCTAACCTTTTCTCATCATGAGTTATCTTGTCATACGTGGCCAATA
GATGTATCCCTGGTTTATATGGCATTCTTTTCTTTGTCATTGGTTATCACAAGTTTTATAACCTTTACCTAAGATGTCCT
TTCAGTCCCTCACTTTTTGTTGGATGCTGACAACACGGTTTGTATTTGAATGCTTCTAAAAGGATTTGTACGTGCATTGT
TTA-----------------------------------------------------------------------------
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-------------------------TTAGATATAGAG-------------------------------------------
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-------------------------TTTACCCTCCTTGATTTGTGAT---TATTCTTTTTTGCTTTTGAAGCAACATGAA
CAATTTGGGTCCCGTTGCAACAAAGGAATTGTGTAGGAATTTCATAGGAACGGAATCATATAGATTTTTTTTCCTATGTG
CCCTTTGGATTATAGAATTGGCTTCAAATTCCTGTATGAATCCTTCCTTCCCTTCACATTTTGGAGGATTCTAGACATTT
TCACTTCCATTGAGAAGTCCAATGCAACAATGTGTCTTTGTCTCTCATCTTCTCTCTCTCCTAAAAAAACAATTCCTGTG
AATTTCCTGTGGAGCATCCAAACAACTATGTTATACAATTCCTACATTTTACAATCATGTAGGAACCTACAAGACATGAC
TTGTAATTCCTACACTTTTCCATTCGTGTGTTTTTCCTATCATGTGTTCCGAACAGGGCCTTAGTGTTGATAGAGAGCTC
CCCGTATATATTTATATTTCGAT------GGGTGCAAAGCGATCAAGATATGTAATAAGAACACACTTTTGCACTAACTA
GTGAGTGTGACATGTCATCGACCAAAGATAGCATATGAGTGTGAAAACATCATCGTTTGTGAGTTCTCTAATAT--GATG
GGCCATTTTTGGATC-CGTCCCATGAAGATGGTCTCTATATGTTAGATTCCCTATAT--GTTAGTTG--ATCCAGGTGAT
GTTCTCATCTAATCACATGATTGCTGACGCAAAATAAATAAATAAATAGAACTTGGTTGGTTTAATGAGCATATGATATC
CAGAG------------------------------------------------------------TCCGCACACAAACCA
A---AAAAAGAAGTTCAGCACTGATACTATTTTTTCATTCGCAAAAAAAAAAAGTATCGGTGCTAGCTCACATGAGAAAT
GAATGCAGAAGAAAAGGATGCCATATAAACCAGGGATAAAGCTATTGGCCACGTATGATAAGATAACTCATGCCATATTC
ATGCTGAGAAAGTTAGGAACCCAGTGGCAGCAAATCTGGCCATTCTTTCACTCAAACCCCAACTTACA---TCCCCTCCA
AATTCTGTTGCCATAAAGCTCCAAATATTGTTATCGTAAAGATTAATTAGCTAGTG-------ATACACGACATTAAAAT
TTCCATTCCGCGTGACTCC-AACGAGAGCAAAAGGCACAACCATAGTTAC
>chr4B_2016
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------------------------------------------------------------TTAGTGTTGAC--AGAGCTC
CCCATATATATTTATATTTCGACGGATGCGGATGCAAAGCCATCAAGATATCTAATAAGAACACACTTTAGCACTAACTA
GTGAGG--GAAATGTCATCGAACAAACATGGCATATGAGTATGAGGACATCATCATTCGTGAGTTCTCTAATATATGATG
GACTATTTTTGGATT-CGTACCATGAAGATGGTCTCTATATATTAGATTCCCTATATACGTTAGGTG--ATCCAGGTCAT
ATTCTCATCAGCTCACATGATTGCTGAAGCAAA----ATAAATAAATAGAACTTGGTTGGTTTAATGAGCATATGATCTC
CAGAG------------------------------------------------------------TCCACACACAAACCA
AGAAAAAAAGAAGTTTAACACTGATACC-TTTTTTCACTCGCAAAAAAAAGTATCAGTGCT--TAGATCACATGAGAAAT
AAATGTAGAAGAAAATGATGCCATATAAACCAGGGATAAAGCTATTGGCCACGTATGATAAGATAATTCATGCCATGTCA
G------GAAAGTTAGGAACGCAGTGGCAGCAAATCTGGCCATTCTTTCACTCAAACCCCAACTTGCA---TCCCCTCCA
AATTCTATTGCCATAAAGCTCCAAATACTGTTATGGTAAAGATTAATCAGCGGGCCTTTCATCGTACACGACATCAAAAT
TTCCTTTCCGCGTGACTCCCAACAAGAGCAAAAGGCACATCCATAGTTAC
>SNPs
SS-SSSSSSSSSSSSSS---S---S---------S----------------S-------S----------S---------
---------------------------------S------------------S---------------------------
--------------------------------------------------------------------------S-----
----------------------------------------------------S-----SS-----------------S--
--------S-----------------------------------------------------------------------
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---------------------S---S----------------S--S-S-----------S---------S----------
---S--------S---------------------S---------------------------------------------
------------S---S-------S----------------------S--------------S--S--------S--S--
------------------S----------S----------------S---------------------S-----------
----S----------S-----------------S--------------------SS-----------------S------
-----------------------------S-SSSSSSSSS-SS-SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS--------SSSSS-SS
-SSSS-S--SSSSSSSS--SSSSSSSSSSSSSSSS-SSSSSSSSSSSSSS-S----------------------------
---------S----------------------------------------------------------------------
-----------------------------------SSSSS-S--------S-S-SSSSSSS-SSSS--SSSS-SS-S-SS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSS---S------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSS--S-S--S---S----S---SSSSS----S---------------SSS-S-SSS-
SSSSSSS-S-----------------------------------------------------------------------
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--S----S----------S-SSS---------------------------------------------------------
-------S-------------S---S------------------------------------------------SS----
---SS---S-S-SS-S-------------------SS-----S-S-------------SS-SSSSSSSS-----------
-------------S--------------SSS---S--SSSS-SSSSSSSSS----S-S------SS---S----------
--S-SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS---------------
------S---SSS-----------------------------------------------------------------S-
---S------------------S--------------------------------------------------------S
----S------------------S----S--------S-S-------------------------SSSSSS---------
----------------------------------S-------------S-SS---------S-------------S----
------------S----S--------------------------------
>forward_52
--------------------------------TCGGGAAGCTGGTTATTCGG----------------------------
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>reverse_1088
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-----------------------------------------------CCCGCGTGTATATCCGAACA-------------
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>forward_1020
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----------------------------------------ACCGGAAATTGGCTATGGCT--------------------
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>reverse_1967
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----------------------------------------------GCATCCAAGGGCAATTGCAA--------------
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