>input_sequence_74445
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---------------------ATGGACGGGAAGGGCGCGACGGAGAGCTCAAACCCTAACCGCGTCGTTGAGAGCGTACC
ATCGGCGGCCGTGGCGTCGGCGTCGGCGCCGACGAAGCGCATGCTGGCGTTCCACTTCCTGCGCGCGCTGTCCCGGATCC
ACGGCGCGGCCGGCCCGGCCAGGCGCCGCACGCGCACCATCCGCCGCGCGGCCTACTCATCCATGGCGCGCGCCACCGGG
CCGCGCCGCGCATGGAGCCGCGCGCTGCTGCTCCAGGCCCAGGCGCGCGCGCGGAGATCCAGGGCGGAGACGTCGAGGCG
GGCCGCGGTGCTCGTACGGCGGCGCGTCGTCGCCGGACCGGCAGC---AGCACCAGCACCAGCACGCGCCGCTCCTGTCG
GCGGACAA------GCATCGGCGGCGGCTGCTCGTGCGGCTCTGGCCCCTCCGCCCCCTCCGGCAAGGCAGGCGGGGGAG
CCGGCGAGGAGCGACGCGCTGCGGCGGCTCGTCCCCGGAGGCGCCGGGATGGAGTACTGCAGCCTGCTGGAGGAGACCGC
CGACTACGTCCGCTGCCTCCGCGCGCAGGTGCAGCTCATGCAGGGCCTCGCCGACCTCTTCTCCTGCCAATGA-------
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>chr2D_1_TraesCS2D01G499200
ACCGACGGATGCAAAGGGAAGATGGTGCTGATTTATTTAAGAACTTACGTGTAATTTCTTATATTCGTAAGGAATA-TTT
TGATCTAATGTATGGCCTACGGTTCTTTGGCAAGGAGAAAAAAAAAACAGAAGTTGCACATGGTTTTAGTTCACCTTGGT
CCCTCGTTGATTTGCATCAGCTACCCGAGGTTCATCTCTTGCTTGCCGATATATTAATTGGCGTCCGGCCCGGCTAGTTG
CTCTCG--------ATGCATGCATGCACCAAGGCATGAGTTACCTGCCCATCCAGAGCAGACGCATGCAAGA----TGAT
CG----AGCTCACATGCGCATCCGACCGCCGTCCGACCGGAGTTGTTCCTGTATCCCGCCATATCTCGCACGACGCACC-
ATTTAGCTCACGCATCACATGCATGGGCTCGCCGCTCGCCGGCCAGGCGAGAGAGTTGTTCACTGGCTCTTCC---TAGC
ATTCCCTG---CCCTGTGACTCCTA----GCTAATTAATCTAGCTTTCCTGGTAACCACCACACTCGACTACATCACATG
CACCCCGCCCTCTCTCTCCCTCT--ACATGCATGTACATCAATTATTTCTCTTAGTATTTCTTTGAGAAAGAAATGTACA
CACACTCATTGGCTTTGTCCCTCCTTGTCAACTGGGTATTATAAGACACGCACCGGATCCTCCCAGG-----ACATTTTG
TGTCAGAGCCGTGTTTCTCGGGCTCTCTCTCCACCATCACAACAGCACAAAGGCAGCAGCAGCAT----CGCGGCCCCAT
TGCTCTCGCCGCTTTGTGTCAGACACCAAATCTTCCTCACCTTCTTCTTCCTCTCC--CTCCCCCACCCAATCTCCTCC-
--CCCACGAGCGCCTCTACTGCCTTTTAAGCCACGCGCCCGCGCCCCCCGCGTACGCCTCCCGCCTTTCCTCTCTCTCCC
TCTCTCCTCGCCCTCTCCTCCTCCTCCTCCTCTTCTCTCT-----------------GTGAGTTGAGGTGAGGTGAGGAT
TTTCCGTGGACGTGCCGTTTGATGGACGGGAAGGGCGCGACGGAGAGCTCAAACCCTAACCGCGTCGTTGAGAGCGTACC
ATCGGCGGCCGTGGCGTCGGCGTCGGCGCCGACGAAGCGCATGCTGGCGTTCCACTTCCTGCGCGCGCTGTCCCGGATCC
ACGGCGCGGCCGGCCCGGCCAGGCGCCGCACGCGCACCATCCGCCGCGCGGCCTACTCATCCATGGCGCGCGCCACCGGG
CCGCGCCGCGCATGGAGCCGCGCGCTGCTGCTCCAGGCCCAGGCGCGCGCGCGGAGATCCAGGGCGGAGACGTCGAGGCG
GGCCGCGGTGCTCGTACGGCGGCGCGTCGTCGCCGGACCGGCAGC---AGCACCAGCACCAGCACGCGCCGCTCCTGTCG
GCGGACAA------GCATCGGCGGCGGCTGCTCGTGCGGCTCTGGCCCCTCCGCCCCCTCCGGCAAGGCAGGCGGGGGAG
CCGGCGAGGAGCGACGCGCTGCGGCGGCTCGTCCCCGGAGGCGCCGGGATGGAGTACTGCAGCCTGCTGGAGGAGACCGC
CGACTACGTCCGCTGCCTCCGCGCGCAGGTGCAGCTCATGCAGGGCCTCGCCGACCTCTTCTCCTGCCAATGATCCATCC
AGTCC---A------TCATCATCATCATGCATCCTCGGATCGATCGAGTAATTCTAAATTATTACTTCTTCCTGCACGTA
CCATCCATGGATTGAAATCATACGATGCTGCTGCGGTGCGGCCGGCTTCCATGATATCGATCCATGGATCTCTTGTTCAT
GTGACATGAGATTGGTCAATGCATCGATCGCGCATGATCAATATAGAGGATTACCGGCCGGCAGGGGAGAGTTAGGTACG
GTGGAGGTGGAG-GAAGATTGGTGGAGTATATATGTTGAGCTGCTGGCAGGGTGAATTATTAGTAGGTGAGAAAAGATTG
GGTGTAGTATGCATTTGTATAGGTTGGGGACACATTGGAACCACACCA--GGGAAAATACAAAGGTAATTAATTGTAACA
TATAAAGAGATAATCGATCGATAAGGAGTTACATA----T------GTGCAGTGTTATTGGGTTAATTAGCAAATTGATC
TATGCATAATATGTTCTTGATTGA--------------------------------------------------------
------------------------------------------------TGTGTAGGTTATGAGGCATATCTGTACACTCC
TCTTTCTGTTACCTTTTCTCTTGTAGGTCTATCTGTGAATTCTGATTGGTGAGCAAGGTAATTAATTAGGGGAACTTTAC
CATGCATGCCTACACATGCAGTTCCATGCATGAAAGCATAGCAATGTTCCCTTT----CATCCTGATGCATGTGACAGAT
TGTATATTGCTGTTGAGCTAGCTAGCTAGCTAGACACATATGTTGATTGCTCTAGAATCAAAGAGTAG-------TTCCC
TGCACATGCATCCATGTATAGCTGGATGATGCTCTGGCTAGATATATAGCTAGCTGCCTTTTGCCTTGTGATTAGATTAG
AGTGCTTGAGGGGTGGTTATGCTGAGGTTGTTTGGTGGAGTGTTTATTTTCCAAGCTCCTCCCAAACTTGAGAAAGTGGG
ATCCACAATCTATGGAAGATAGGGGTTTGATAATCCTTGAGCTGGAGAAGACATAACTTGTAGCCAAAGGGACCTAAGAC
ATTCTCTCCA
>chr2A_2
-CCGACGGATGCAAAGGGAAGAGGGTGCTGACTTATTTAAGAACTTACGTGTAATTTCTTATATTTGTACGGAATTTTTT
TGATCTAATGTATGGCCTACGGTCCTTTCACCAGAC-AAAAAAAAG---GAGCCTGCACATGG--TTAGCTCACCTTGCT
CCCTCGTTGATTTGCATCGGCA----GAGGTTCATCTCTTGCTTCACG--ATATTAATTGGCGTCCGGCATGGTTAGTTG
CTGCCG--------ATGCATGC----ACCAAGGCATGAGTTACCTGCCCATCCGGAGCAGACGCATGCACGCGAGCTGAT
GG----AGGTCACATGCGCCTCCGACCGCCGTCCGACCGGAGTTGTTCCTGTATCCCGCCATATCCCGCACGACGCACCC
ATTTAGCTCACGCATCACATGCATGGGCTCGCCGCTCGCCCTCTAG----GAGAGTTGTTCACTGGCTCTTCTTCATAGC
ATTCCCTG---CCCTGCCCTGTGCCTACTGCTAATTAATCTAGCTTTCCTGGTAACCACCACACTCGACTCAATCACATG
CACCCCCCTCTCTCCCTCTCTCTACACATGCATGTACGCCAATTATTTCTTCC---ATTTCTTTG----AGAAATGTGCA
CACACTCATTGGCTTTGTCCCTGGTTGTCAACTGGGTATTATAAGA----------------------------------
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>chr2B_95
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---------------CCTACGGGTTTTTGGCAAGAC-AAAAAAAAAACAGAGCTTGCACATGGTTTTAGCTCACCTTGGT
CCCTCGTTGATCTGCATCAGCG----GAGGTTCATCTCTTGCTTGCCGATATATTAATTGGCGTCCGGCCTGGCTAGTTG
CTCTGGATGCATGCATGCATGC----ACCAAGGCATGAGTTACCTGCCCATCCAGAGTAGACGCGTGCGAGA----TGAT
CGAGCTAGCTCACATGCGCATCCGACCGCCGTCCGACCGGAGTTGTTCCTGTATCCCGCCATATCTCGCACGACGCACCC
ATTTAGCTCACGCATCACATGCATGGGCTCGCCGCTCGCCGGCAGAA-GAGAGAGTTGTTCACTGGCTCTTCC---TAGC
ATGCATTCCCTCCCTGTGACTACTA----GCTAATTAATCTAGCTTTCCTGGTAACCACCACACTCGATCACATCACATG
CACCCCTCTCA---------------------------CCAATTATTTCTTTC---ATTTCTTTG----AGAAATGTACA
TACACTCATTGGCCTTGTCCCTGGTTGTCAACTGGGTATTATAAGACACGCACCGGATCCTCCCAGGACATCACATTTTG
TGTCAGAGCCGTGTTTCTCGGGCTCTCTCTCCACCATCACAACAGCACAAAGGCGGCAGCGGCATCGCGCGCGGCCCCAT
TGCTCTCCCCGCTTTGTGTCAGACACCAAATCTTCCTCACCTTCTTCTTCCTCTCTCTCTCCCCCACCCAATCTCCTCCT
CCCCCACGACCGCCCCTCCTGCCTTTTAAGCCACGCGCCCGCGCCCCCCGCGTACGCCTCCCGCCTTTCCTCTCC-----
---CTCATCACCCTCTCCTCCTCCTCCTCCTCTCTTTCTCTCTGCGAGCGAGGTGTGGTGAGTTGAGGTGAGTTGAGGAT
CTTGGGTGGACGAGCCGTTTGATGGACGCCAAGGGCGCGACGGAGAGCTCAAACCCTAACCGCGTCGTTACCAGCT---C
ATCCGCTGCAGCGGCGTCGGCCTCGGCGCCGACGAAGCGCATGCTGGCGTTCCACTTCCTGCGCGCGCTCTCCCGGATCC
ACGGCGCGGCCGGCCCGGCCAGGCGCCGCACGCGCACCATACGCCGCGCCGCCTACTCCTCCATGGCCCGCGCCACCGGG
CCGCGCCGCGCATGGAGCCGCGCGCTGCTGCTCCAGGCCCAGGCGCGCGCGCGGAGATCCAGGGCGGAGACGTCGAGGCG
GGCCGCGGTGCTCGTACGGAGGCGCGTCGTCGCCGGACCGGCAGC---AGCAGCACCACGCGCCGCCGCCGCTCCTGTCG
TCGGACACGGGCAGGCATCGTCGGCGGCTGCTCGTGCGGCGCTGGTCCCTCCGCCCCCTCCGGCACGGCAGGCGGGGGAG
CCGGCCAGGAGCGACGCGCTGCGGCGGCTCGTCCCGGGAGGCGCCGGGATGGAGTACTCCAGCCTGCTGGAGGAGACCGC
CGACTACGTCCGCTGCCTCCGCGCGCAGGTGCAGCTCATGCAGGGCCTCGCCGACCTCTTCTCCTGCCAATGATTCATCC
AGTCCGTCA------TCATCATCATCATGCATCCTCCGGTCGATCGAGTAATTCTAAATTATCACTTCTTCCTGCACGTA
CCATCCATGGATTGAAATCATACGATGCTGCTGCGGTGCGGCC----TCCATGATATCGATCCATGGATCTCTTGTTCAT
GTGACATGAGATTGGTCAATGCATCGATCGCGCATGATCAACATAGAGGATTACCTGCCGGCAGGGGAGAGTTAGGTACG
GTGGAGGTGGAG-GAAGATTGGTGGAGTATATATGCTGAGCTGCTGGCAAGGTGAATTATTAGTAGGTGAGAAAAGATTG
GGTGTAGTATGCATTTGTATAGGTTGGGGACACATTGGAACCACACCA--G--AAAATACAAAGGTAATTAATTGTAACA
TATAAAGAGATAATCGATCGATATGGAGTTACGTA----TATACTAGTGCAATGTTGTTGGGTTAATTACTTCATTGATC
TACGCATAATATGTTCTTGATTGAACTACATATATATGCTAGATGGGTGCTATATGTTGTTGGGTTAATTACTTCATTGA
TCTACGCATACCATGTCATGTGGGTGCTATATATCTTGAAGCTATAGATGTGTAGGTTATGAGGCATATCTATACTCTTC
CCTTCCTGTTACCTTTTCTCTTGTAGGTCTATCTGTGAATTCTGATTGGTGAACAAGGTAATTAATTAGGGGAACTTTAC
CATGCATGCCTACACATGCAGTTCCATGCACGAAAGCATAGCAATGTTTCCTTCCATGCATCCTGATGCATGTGACAGAT
TGTATATTGCTGTTGAGC--------TAGCTAGACTCATATGTTGATTGCTCTAGAATCAAAGAGTAGTTCCCTCTTCCC
TGCACATGCATCCATGTATAGCTGGATGATGCTCTAGCTAGATATATAGCTAGCTGCCTTTTGCCTTGTGATTAGA----
-GTGCTTGAGGGGTGGTTATGCTTAGATTGTTTGGTGGAGTGTTTATTATCCAAGCTCCTCCCAAACTTGAGAAAGTGGG
ATCCACAATCCATGGAAGGCAGGGGTTTGATAGTCTTTGAGCTGGAGAAGACATAACTTGTAGCCAAAGGGACCTAAGAC
ATTCTCTCCA
>chr2A_649
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--------------------------------------TTATAAGACACGCACCGGATCCTCCCAGGACAT-----TTTG
TGTCAGAGCCGTGTTTCTCGGGCTCTCTCTCCACCATCACAACACCACAAAGGCAGCAGCGGCAG----CCCGGCCCCGT
TGCTCTCCCCGCTTTGTGTCAGACACCAAATCTTCCTCACCTTCTTCTTCCTCTCTCTCTCCCCCACCCAAT---CTCCT
CCCCCACGAGCGCCCCTCCTGCCTTTTAAGCCACGCGCCCGCGCCCTCCGCGTACGCCTCCCGCCTTTCCTCTCTCTT--
TCTCTCGTCGCCCTCTCCTCCTCCTCCTCCTTCTCTCGCTCT-----GCGAGGTGTGGTCAGTTGAGGTGAGGAGAGGAT
TTTGGGTGGACGCGTCGTTTGATGGACGCCAAGGGCGCGACGGAGAGCTCAAACCCTAACCACGTCGTTGCCAGCGTACC
ATCGGCCGCCGTGGCGTCGGCGTCGGCGCCGACGAAGCGCATGCTGGCGTTCCACTTCCTGCGCGCGCTGTCCCGGATCC
ACGGCGCGGCCGGCCCGGCGAGGCGCCGCACGCGCACCATCCGCCGCGCTGCCTACTCCTCCATGGCGCGGGCCACCGGG
CCCCACCGCGCATGGAGCCGCGCACTGCTGCTCCAGGCCCAGGCGCGCGCGCGCAGATCCAGGGCGGAGACGTCGAGGCG
GGCCGCGGTGCTCGTCCGGAGGCGCGTCGTCGCCGGACCGGCAGCGGCAGCACCAGCACGCGTCGCCCTCGCTCCTGTTG
TCGGGCAG------CCATCGTCGGCGGCTGCTCGTGCGGCGCTGGTCCCTCCGGCCCCTCCGGCGCGGCAGGCGGGGGAG
CCGGCGAGGAGCGACGCGCTGCGGCGGCTCGTCCCCGGCGGCGCCGGGATGGAGTACTGCAGCCTGCTGGAGGAGACCGC
CGACTACGTCCGCTGCCTCCGCGCGCAGGTGCAGCTCATGCAGGGCCTCGCCGACCTCTTCTCCTGCCAATGATCCATCC
AGTCC---ATCATCGTCATCATCATCATGCATCCTCCGGTCGATCGAGTAATTCTAAATTATTACTTCTTCCTGCACCGT
C--------GATCGAAATCATAGGG---------------------TTCCATGATATCGATCGGTGGATCTCTTGTTCAT
GTGACATGAGATTGGTCAATGCATCGATCGCGCATGATCAATATAGAGGATCACCGGCTGGCAGGGGAGAGTTAGGTACG
GTGGAGGTGGAGGGAAGACTGGTGGAGTATATATGTTGAGCTGCTGGCAGGGTGAATTATTAGTAGGTGAGAAAAGATTG
GGTGTAGTATGCATTTGTATAGGTTGGGGACACATTGGAACCACACCAAGG--AAAATACAAAGGTAATTAATTGTAACA
TATAAAGAGATAATCGATCGATATGGATTTACATATGTCTATACTAGTGCAGTGTTGTTGGGTTAATTAGCAAATTGATC
TATGCATAATATGTTCTTGATTGAACTACAAACACATATGTGATATG---------------------------------
-------ATACCATGTCATGTGGGTGCTATACATCTTGAAGCTATAGATGTGTAGGTTATGAGGCATGTCTGTACTCTTC
CCTTTCTGTTACTTTCTCTCTTGTAGGTCTATCTGTGAATTTTGATTGGTGAACAGGGTAATTAATTAGGGGAACTTTAC
CATGCATGCCTACACATGCAGTCCCATGCATGAAAGCATAGCAATGTTTCCTTC----CATCCTGATGCATGTGACAGAT
TGTATATTGCTGTTGAGC--------TAGCTAGACTCATATGTTGATTGCTCTAGAATCAAAAGGTAG-------TTCCC
TGCACGTGCAACCATGCATAGCTGGATGATGCTCTAGCTAGATATATAGCTAGCTGCCTTTTGCCCTGTGATTAGG----
-GTGCTTGAGGGGTGGTTATGCTTAGGTTGTATGGTGGAGTGTTTATTTTCCAAGCTCCTCCCAAACTTGAGAAAGTGGG
ATCCACAATCTATGGAAGATAGGGGTTTGATAATCTTTGAGCTGGAGAAGACATAACTTGTAGACAAAGGGACCTAAGAC
ATTCTCTCCA
>SNPs
S---------------------S--------S---------------------------------S---S-----S----
----------------------------------SSS--------------SS----------------S----------
---------------------SSSSS--------------------------------------------S---------
----------------------SSSS------------------------------------------------------
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-------------------------------------------S--SS--------------------------------
---------------------S----------------------------------------------------------
------S-S-----S---S------------------SS-----------S-SSSS---------SSSS-----------
----------------------SS--------------------------------------------------------
------------------------------------------------------------S-------------------
-------S-----------------------------------------------S------------------------
--------------S--S-----------------------------------------------------------SSS
------S------------------------------S------------------------------------------
---SS-------S---------------SS----------------------------------------SS--------
------S-------------------------------------------------------------------------
-------------------------------------------------S--------S---------------------
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-------------------S---------------------------------------SS--SSS--------------
S------S------------S-------------------S----S-------------------S--------------
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------------------------------------S-S-----------------------------------------
-------------------------------------------SSS----------------------------------
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---------------------------------------------------SS---------------------------
-----------------------S--------------------------------S-----------------------
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---------------------------------------------------------------------------S--S-
S---------------------------------------------------S---------------------------
------------------------------------------------S----S--------------------------
------------------SSSSSSSS---------S--------------------------------------------
-----------------------------------S----------------------------------------SSSS
S----------------------S--------------------------------------------------------
-----------------------------------S--------------------------------------------
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>forward_567
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-------------------------------------------------------------------ACTACATCACATG
CACCCCG-------------------------------------------------------------------------
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>reverse_2638
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-----------------------------------------------------------------------------TAG
AGTGCTTGAGGGGTGGT---------------------------------------------------------------
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