>input_sequence_86404
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----------------------------------------------ATGTGT---TTCTCAGATGCTTCACCAAAACCAG
TTCATGATCATAGTGCACCTCCCAAAGTAAATAAGGACAAGATAGGCAGCACCAATAAGGAAGGACCATCCAAGGAGGTG
AAACATCTCGCAAGAGTTCAAAAGATTGTCAAATTCCGGTCGATCAATGAGGATCATCACGAG--CAGAGCATATCAGCA
TAAGGATAAGGAGTTTTGCTTTAACCCTTCAAATAGAATGTAA-------------------------------------
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>chr3A_1_TraesCS3A01G470900
CAGGGAGGCGACATGGGGGGTACGAGGGGAAGGGGGAAGGTGGAGGGAGGGGCGGGGGAGCGGGAGAGGCGAGCGGCGAC
GGCAGGTTCCGGCCGCGGCGGCGGCTCCGCACGGGGGAGCCGCCGGCGGCGGCGCGGAAACCCTAGGCGGAAGGGTCGCA
CGCTTCCTCGTGGTTGTTGGAGTTACTTTTTCCTTAGGCACTTTTGCTACCTC---TATGCTATTGATATCAAGAACGAG
TTCAGATTTGATTATATCAGAAATGTTTAAATGGCGAGTATAGTTCCACAGCAT-TTCTTTTGCTTGTTTAACATGAAGA
GGAAGCAGTAGGCTATGTGCTGATTACTCTAGCGCTGGTCTGGTACTGCCCACTGATATTATTACACCAAGGGACTAGAT
GCCTTTCTTGTATTTGGCCGAAATC------AGATTTGTTTTTA-----------------GGTTACCATCATCAGATAC
AAAATGCTGTTCAGGATGTGTCTGCCTCTTCAGTAGATTTTATGAGAAAATCTGGGCAGTAATCATGTTGGGCCATGGTA
ATTTTTCAGCACGTCTCCTGCTTATTTAGATTTTTGGCGCCCTACTGTGTACAAACGACTAGACT-GGTATCACAATTTC
TTGATGCGAAGAAGTCAATGTTGTTTCTGTGAGATATTTAGTGGTTGGCTAGTCCACGAAGTTCTTGTAAACATGTTTTT
CAGGGTTTGGATACATTGGCCCCTAACTTGATAGTAGGTGACGCCGTGACGGCGTGAAGATGGTGAG-------------
TGCCTGTTTGAAG-TTTATCTCATCGAACTTTTAGCAGTGATGTTCTATG-------------TTTGACCATACCGCTAG
ATGTGGAGTGTCAGTGTGTTGGT-ATGATGTAGATCCTTTGTGTGTGCATATATAAGCTAATGTATCACTGTTAGAACTT
CACTTAGAGTTGTCATGTTAAAATGCTGTTTGGATACACCCATTTATCTAGAAATGTTAGAGCATTTT------------
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------------------TTTTTCTGTTGATGCATTTGCTCTTAAAATGTGT---TTCTCAGATGCTTCACCAAAACCAG
TTCATGATCATAGTGCACCTCCCAAAGTAAATAAGGACAAGATAGGCAGCACCAATAAGGAAGGACCATCCAAGGAGGTG
AAACATCTCGCAAGAGTTCAAAAGATTGTCAAATTCCGGTCGATCAATGAGGATCATCACGAG--CAGAGCATATCAGCA
TAAGGATAAGGAGTTTTGCTTTAACCCTTCAAATAGAATGTAAGGATGATACTTCCTAATTTTAATTGTCCACTAGCATT
CTCTATTTTGAGGTAAGTTGCAATATGCAAGTCTGGTGGTTCTTATCATCTCTTTCTGAATTTTCAATCTTCTGAAAATC
TGCATAGTGGATGTCTTGGCTCTGTGTGAACTCATCGAACAATATCTAAAACCTGAGAAACACCTTGTACCCTCCAGTTT
ACAAATAAGTGACGTTTTGACATACATTGAGTCATTTAAAA-AAGAAATTTTGATAGCCATTCTTGTTTTTGATATGGAA
ACTTGAAGATCATATGTATAGGTTTGACTCAAAT----------------------------------------------
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-------------ACTTTTTCACCACTCATGTATATCATGCTCATTGGCGGCCACAAGCTAATTAAATTCACTTCATTTG
TGAACCACTTCTTACCTGA-------------------------------------------------------------
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--------------------------------AGTAGCAGCAATATGGTTTAGTCGGGCACAACTGCAAGTGTTTAATAT
GAAATGGTCTTGTTTGCACATAACCTCCCATTCTTTAGCTCATCGACTTGCTCGTGCTAACCACTTGAACTGGGAGGCTG
G---------GGTGCTTTTGAAGTTCATCTCTTAGTTGGCCAACATTGGTGCCACATTAGAACCAGGTGCTGACAACATT
TGATGAGTGCTTATGTTGAGGCCAACTAAGATATGAACTTCAATTTTTACCAAGCGGTAGGGGACACAGGATGCCAAGTT
GAAACAAATTGAAGAAAGAACAATATTTTAACCAAGTGAAACATACAGAGATGCAAAAATTGCTGCTA-----AAGAATG
CTAGCAATTGCAAC-------CATAAAGATGCCAATATTGCTTGGACCAATGAAAACACTCGAAATGAAAGCCCCGCACA
AGCAGTGTTTGACAATATATGGCAATAGTCAATAGTTGTACACAATGGCCGGCAATGTTAAAACTAGAAAGTATACTTTT
TCTTACCTTGATTATACAGAATTACACAATAATTTACAGACATCAT-TGGAAAGTACATGTAGAATTACACACACATCAT
TTACATTGAAATAAAATG
>chr3D_189
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----------------------------TTTCCTTGGGCACTTTTGCTACCTCCTCTATGCTATTGATACCAAGGATGAG
TTTAGATTTGATTATATCAGAAATGTTTAAATGGCGAGTATAGTTCCACAGCATCTTTTTTTCCGTGTTTAACATGAAGA
TGAAGCAGTAGGCTATGTGCTGATTACACTAGCGCTGGTCTGGTACTGCCCACTGATATTATTACATCAAGGGACTAGAT
GCCTTTCTTGTATTTGGCCGAAATCTCCTTCAGATTTGTT-TTTAGGTTGACACTGTCGAGGGTTACCATCATCAGATAC
AAAATGCTGTTCAGGATGTGTCTGTCTCTTCAGTAGATTTTATGAGAAAATCTGGGCAATAATCATGTTTGGTCATGGTA
ATTTTTCAGCACGTCTCCTGCTTATTTAGATTTTTGGCCCCCTACTGTGTACAGACTACTAGACTGGGTATCACAATTTC
TTGATGCGAAGAAGTCAATGTTGTTTCTGTGAGATATTTAGTGGTTGGCTAGTCCACTAAGTTCTTGTAAACATGTTTTT
CAGGGTTTGGATACATTGGCCCCTAACTTGATAGTAGGTGACG--------GCATGAAGATGGTGAG-------------
TGCCTGTTTGAAG-TTTATCTCATCGAAATTTTAGCAGTGATTTTCTATG-------------TTTGACCATACCGCTAG
ATGTGGAGTGTCAGTGTGTTGGT-ATGGTGTAGATCCTTTGTGTGTACAAATATAAGCTAATGTATCACTGTTAGAACTT
CACTTAGAGTTGTCATGTTAAAATGTTGTTTGGATACACCCAT--ATCTAGAAATATTAGAGCATTTTTTATAGGAGTCT
CTGTAGAGTATTTATCAAGAAAACTTTGTAAACTCTACCTGATTTTTTCCTGTTTATTAAGTCCGTGAGGAGTAGATAGA
ACCAAGCCGTATTTGAATTCCATAAATTATTTTTTATTGCTTTAGCACTAAAAGCCATTGCGTTTGAATGA-------TA
TTACCTGTACCAGTAAACTTCATTGGTTTTTCCTTCCATTGTGATTACTTCTGCTGTGAAAATTATTGGAAAATTTCTAC
TTAAGGCTTCCAATCGTTAACCTACCTGCTGAGTGAGCTGATAGCCTGAGGCCTTGTTTAATGACAGATTGGAGAGTACG
AAGAAACGGTCGGTACATATTATTTATTTTCGGAAAGTAGCAAGTGTTTGCTCTGATAACATACCTCTGGTCCTCTTTCT
TTGGCAAGTGTTTAATATGAAATGGTCTTGTTTGCACATAACCTCCCATTCTTGGATCCCGTTACTCCAGGTATATTTGA
AATAGAAATATGTAATGATTGAACTTATCAGAAAGGCAGGCTAACATTGCCACTCATTAGCATCGTC--ACTCCTTCCGT
GCACTCTAATGCAATTTTTTTTTCTGTTGATGCATTTGCTCTTTCAATGTGT---TTATCAGATGCTTCACCAAAACCAG
TTCATGATCATAGTGCACCTCCCAAAGTAAATAAGGACAAGCTAGGCAGCACTAATAAGGAAGGACCATCCAAGGAGGTG
AAACATCTCGCAAGAGTTCAAAAGATCATCAAATTCCGGTCGATCAATGAGGATCATCACGAG--CAGAGCATATCAGCA
TAAGGATAAGGAGTTTTCCTTTGACCCTTCAAATAGAATGTAAGGATGATACTTCCTAATTTTAGTTGTCCACTAGCATT
CTCTATTTTGAGGTAAGTTGCAATATGCAAGTCTG--GGTTCTTATCATCTCTTTCTGAATTTTCAATCTTCTACAAATC
TTCATAATGGAGGTCTTGGCTCTCTGTGAACTCATTGAATAATATCT-AAACCTGAGAAACACCTTGTACCCTCCAGTTT
ACAAATAAGTGACGTTTGGACATACCTTGAGTCATTTTAAACAAGAAATTTTGATTGCCATTCTTGTTTTTGATATGGAA
ACTTGAAGCTCATATGTATAGGTTTGACTCAGAAATACTTTCAGAATTTCACAACTTTTTTGGGTTTTATAGATTAACTG
CAGTAGAAATGATTGGTCAGAGGTAATTTTGAAGGACGTGCCAATGTCCAAATCATTACTTATTCAGTTATTTGTGAACC
CAGAGGAACTTGTAAAGCCATTTGGTACTTTTTTAGAAACGTGAAGCCATCCACTACTTGAGTTTGAAAAGTCATTGCCT
TACGTACCTTTCCACCCCTAGACCATCCATCCTGATGAGCAACGAAGCGGATCTGAACTTCTTAAATCTCTTTAAACACC
AAGACCTGAATCTGATAGTGTTCCCAAGTAAGAGTACCACCCTTTACCACTTGCAACATGTCATAGAAAACACCAAGCTC
CTGTTGTGAACTTGTAGGAGACTAACCAAAAACTAGGTTATCACAATGGTTGTGTATAACAAAACAAGGAGTGCTTCTCC
CACACAAAAAAAAAGGAGTGCTTCTATGCTCTTCCAACTTTTCTTTGCGCAAGGCTAAAGGAAAAAAAAATATCACACAA
ATCCCAAAGCACAATTGGCTAGTTAACGCTAAGGCTAGTGTAGTCACTTACTAATAATGGCTTGAAGCCCACGTCCAGAT
CTGGCCCATGGTTTCTTCCGCCGTCCTTCTCTTGTGCCAGAACCACACCCTTCTCTGTCGAACTCCCCAAAACCCTTGCC
TGTGCAACTGCTGCTGGACGGCACACTGGTTGTATGTCCTCATCCAGGATGCACAACCTGACTTTCCGGGAGATCTGCTA
TCCGCGTATATAAACTTTTTCACCACTCATGTATATCATGCTCATTGGCTGCCACAAGCTAATTAAATTCACTTCATTTG
TGAACCACTTCATACCTGAAGTAGCAGCAGGGGCGGAGCCAGAAAATTTGGCCATTGGGTTCACTCCATGACTCATTGTG
AGAAGTTGGTACTAATATATGAAGTGTAAAGTGAGTGCGGCGAATCTGCACCCGGGCTCAGCTGCACCCACGCTCACGGA
AAAAATCAAAACAAATACAAAAAAATTCAAAAAATTCCAATTTTTTTTGTGTGGTAGATAATTAGATGCGTGAGGTTCGC
TGAAAAATTCAACTCGTTTGGACATTTGAGCAAGTCTGTGCAAAAAAGACAAAATCGGGGTCTGTAAAAAAGTTTACTGT
TCATGAACTGTTTTGACCCGATTTGTCTTTTTTGCCGACACCTACTCAAATATCCAAATGAGTTGAAATTTGGTGCGGAC
CTCACGCATCAAATTATCTACCGCACAAAAAAATTAGAATTTTTTGAATTTTTCTAGTATTTGTTTTGAATTTTTTACTG
ACCGGGAGCAGCTGAGCCCGGGCTCCAGGATGAATTATCGGTGTAAAGTATAATTTTAAATTATCTTACAACAAAATATG
ATAACCGAAAACAACATAATGAATAGAAATACGGTATCACATATCACATAATGTGTTGCATTAAAAACTGAAGAGTGCAG
GACATACCGGTTTAATAAAATTAGAAAATCACTTATTTATACATATCATAAATAGAGTAGTATCAAATAACTTTGTAGCT
CCAGGTGTAGCTTCTTATCTTCCTGGAACATTGAAAAAATGACAAGTTAGTTTGATGTTACTCTGCAAAATAATTTGCAA
TTTCCTTTTGAATATCTCCACATACCCATTTATAGTTTTTTGGAGCATTCTCAAGAACTACATTCCATATAGCTTTATTT
TGGTTTGCCAAAGTATATACCAACTCTTGGAAATTCCCATTATTTTCTGACTCCTCTGATTTGTCATGACCTGAAAAGCT
AAACCTTGATGCAACAAGTATCTCACTGAATCAATGGAAGCATTAAGCTAGATTCAATTTTTCTTTTTTGTAAGGCCAGT
TTGCTTATCAAGAGCAACCTGAATTGACTACTCTTGATTTATCAAAGCATCACATCTTTTTACGGATAAATTATGAAAGC
TATATTAACATTACCCTTACCCTCATGAGTATCTAGTCCAACCGTTCCAGCCATTAATTGCAAATGGATCACTCCTAGCT
TGTCCCTCATTGTAATCTCTGAAAAGATAGCAGCACAAACAAAAGGTCTTACGCACTTTGTCACTATACTTGAGCCAACA
ACCTTATTCATCAAACCAATTTGGATTAAATCTCTGTTGAGTATCTCCAATCTCCCTCTACGGTAATCAAAATTAGTCGG
TGGCTTGTAAGGTCCCTTCTTAAATATCTATGCCTAATCTCATCTTGTTTCTTTGGATTTTTTGTGTACTCAAAAATTCT
CTTCCGATCAGCCGAATCATAAGACAACTCATCTAAGTTAATTTATGTACGAATATAATAGGCTTCGGGAGACTAGCTGC
AGTGACATTAGATGCACTTTGCCAATGTATAATGGGTGACCTTCATGTGCCTGTATCATTATCTGGATCTGATGACCGAG
TTCTTTTTGAATAAAATACTGCTCCATATCCTAGATCAATCAAAGTCCATGGAGAAAAAAAATCAAAAAAATCACTGCTA
TTAGGCTAGATGGAACATCCACAAGAGAGAGGGGATATGGGCATATGGCAATGTAATCTAATTACCTCGATCTGCAGCGG
CCAGCTTGCCGGCGGTACTGCTGGGGGTGGGCGCTGGCGTGCGGCGGCTGAGGCGCCGAGGCCGAACAGGCGAGATGTGG
AAATTGGAGAAATGAACATACCAAGGCGTGCCGTGTGCGGATGCGTTCATATATAGGCCGCGTCCATACTCATTTGCTTT
ACTCCTGGGCTTTTGCCTTTTGGGCCCTTTGTTTACCTATATCCATCCACGTGACGTGATGTGTAATTTGATGGGGTCAG
CCAAGAATTTTTAATGGGTTCACATCACGCAAATACATACCCACATGGACGTACCAGGTAAAAGTCGTTGGGTTCACTTG
AACCCAACGCGTCTACGTTGGCTCCGCCGCTGAGTAGCAGCAATGTGGTTACGTTGGGTACAACTGCAAAAGCAATTCTG
C-----------------------------------AGCTCATCGACTTGCTCGTGCTAACCACTTGAACTGGGAGCTTG
GGACAAGATTGGTGCTTATGAAGTTCATCTCTTAGTTGCCCAACATTGGTGCTACATCAGAACCAGGTGCTGACAACATT
TGATGAGTGCTTATGTTGGGGCCAGCTAAGATATGAACTTCAACTTTTACCAAGCGGTAGGGGACACAGGATGCCAAGTT
GAAATAAATTGAAGAAAGAACAACATTTTAACCAAATGAAACATACAGAGATGCAAAAATTGCTGCCAGTGAGAAGAATT
TTAGCAATTGCAACAATAGGCCATAAAGATGCCAATACTGCTTGGACCAATGAAAACACTCGAAATGAAAGCCCCACACT
AGCAGTGTTTGACAGTATATGTCAATAGTCAATAGTTGTACACAATGGCCGGCAATGTTAAAACTAGAAAGTATACTTTT
TCTTATCTTGATTATACAGAATTACACAATAATTTGTAGACATCATATGGAAAGTACATGTAGAATTACACACACATCAT
CTGCATTGAAACAAAAT-
>chr3B_189
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----------------------------TTTCCTTAGGCATTTTTGCTACCTC---TATGCTATTGATATCAAGAACGAC
TTTATATTTGAT--TATCAGAAATGTTTAAATGACGAGTATAGTTCCACATCAT-TTTTTCCCCTTGTTTAACATGAAGA
TGAAGCAGCAAGCTATGTGCTGATTACACTAGCGCTGGTGTGCTACTGCCTACTCATATTATTACATCAAGGGACCAGAT
GCCTTTCTTGTATTTGGCCAAAATCTCCTTCAGATTTGTTTTTTAGGTTGACACTGTCAAGGGTTACCATCATCAGATAC
AAAATGCTGTTCACGATGTATATGTCTCTTCAGCAGATTTTGTGGGAAAATCTGGGCTGTAATCATGTTGGGACATGGTT
AGTTTTCAGCATGTCTCCTGCTTATTTAGATTTTCAGCGCCCTACTGTGTACAGACTACTAGATT-GGTACCACAATTTC
TTGATGCGAAGAAGTCAATGTTATTTTTGTGAGATGTTTAGTGGTTGGCTAGTCCACTAAGTTCTTTTAAGCATGTTTTT
CAGGGTTTGGATACACCGACCCCTAACTTGATAGTAGGTCGCG--------GCGTGAACATGGTGAGTACTCATGTTGCT
TGGCTGTTTGAAGTTTTATCTTATTGAACTTTTAGCAGTGATGTTCTATATTTGCATTCTCTATTTGACCATACCACTAG
ATGTGGAGTGTCAATATGTTGGTAATGATGTAAATCCTTTGTATGTACAAATATAAGCTAATGTATGACTGTTAGAACTT
CACTTGTAGTTGTTATGCTAAAGTGCTATTTGGATACACCCATTTATCAAGAAATGTTGAAGCGTTTTTTTATAGAGTCT
CTCTAGAGTATTTTTCTGAACTCTATTT--------------TTTTTTTCTGTTTAAGTTCT---TGAGGAGTAGATAGA
ACCAAGCCACATTTGAATTCCATAAATTCTTTGTGACAGCTTTAGCACTAAAAACCATTGTGTTTGAATGATATTACTTA
TTACCTGTACCAGTAAACTTCATTGGTTTT-CCTTCCATTGTGATTACTTCTGCTGTGGAAAATTTGTACTGAAG-----
----GGCTTCCAATCGTTAACCTACCTGCTGAGTGAGCTGATTG-CTGAGACCTTGTTTAATGACAGATTGGAGAGTATG
AAGAAACGGTCGGCACATATTATTTATTTTCGGAAAGTGGTAAGTGTTTGCACTGATAACATACCTCTGCTCCTCTTTCT
TTGTTAAGTGTTTAATATGAAATGATCTTGTTTGCACACAACCCCCCCTCCTCC--------------------------
-----------------ATTGAACTTGTCAGAAAGGCAGGCTAACATTGCCATTCATTAGGAGCTCATTACTCCTTCCGT
GCACCCTAATGTGA---TTTTTTCAGTGCATTCATTTGCTGTTTCAATGTGTTCCTTCTCAGATGCTCCATCAAAACCAG
TTCATGATCGGACTGTACCTCTCAAAGTAAATAAGGACAAGCTAGGCAGCAGTTGTAAGGAAGGACCATCCAAGGAGGTG
AAACATCTCGCAAGCGTTCAAAAGATCCTCAAATTCCAGTCGATCAACGAGGATCATCATGAGCACAGAGCATATCAGCA
TAAGGATAAGGAGTTCTCCTTTGACCCTTCAAATAGAATGTAAGGATGATACTTCCTAATTTTAATTGCCCACCAGCATT
CTCTATTTTGACGTAACTTGCAATATGAGAGTCTGCTGATTATTATCCTCTCTTTCTGAATTTTCAATCTTCTAAAAATC
TGCATGATGGAGATCTTGGCTCTCTATGAACTCATGCAACACTATCTAAAACCTGAAAAACACCTAGTTCCCTCCCGTTT
ACAAATAGTCGACGTTTGGACATACCTTGAGTCATTTAAAA-AA------------------------------------
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>SNPs
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSS----------------------------------------------------
--S------------------------------------------------------S----S-----------------
S--------------------------S--------------------------------------S-------------
-------------------------------------------S------------------------------------
------------------------S-----------------------------------------------S-------
-----------------------------------------------------S--S-----------------------
---------------------------------------------------------S----------------------
-------------------------------------------SSSSSSSS-----------------------------
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----------------------------------------------S--S------------------------------
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-------------------------------------------SS-----------------------------------
-----------------------------------------S----------S---------------------------
--------------------------SS----------------------------------------------------
-----------------S----S---------------------------------------------------------
-----------------------------------S-------------------------------------S------
------S----S-----------S-----------S--------------------------------------------
-----------------S-------S-----------------------------S------------------------
--------S----------------------S-S----------------------------------------------
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-------------------------------------------------S------------------------------
-----------S--------------------------------------------------------------------
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--------------------------------------------S-----SS--S---S----------SS-SSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS----------------------------------------SS--
-----------------S--------------------S-------------S----S----------------------
------------------S-----S------------------S------------------------------------
----S------------------S-----------S------------------------------S------------S
S------------------------------------S-------------------------------------S---S
--------------S------S----------------------------------------------------------
-----S-----------------------------SS-------------------------------------------
S-S--------S-----S
>forward_181
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-GCTTCCTCGTGGTTGTTGGA-----------------------------------------------------------
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>reverse_5277
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----------------------------------------------------------------------------GCTG
GGGTGCTTTTGAAGTT----------------------------------------------------------------
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