>input_sequence_74254
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---------------------------------------ATGAGCAAGAGAGGCAGGGATGTGTGGGACATGGAGCTTGG
AGGCCTGGACACGGCTCGCCTGCTCATGCTCCTCGCGCAGCA---------GCACCAGCA---------CCA--------
-GC---------GCGCCGTCGCCGGGGCGGCGCAGGCGATGGGCGGCGGCCGCGTGTTCGAGTGCAAGACGTGCAACCGG
CAGTTCCCCACGTTCCAGGCGCTCGGCGGACACCGCGCCAGCCACAAGCGCCCCAGGCTCCACCAT---CCGCAGCCGCA
GCACGCGACCGGCAGCGTCGACGACGACGACGCGGCGCTCCGCCTCGGCCG---------CCAGGC---------GCCGC
CGCAGCCGGCCAGGCCGAGGGCGCACGAGTGCCCCGTCTGCGGGCTCGAGTTCGCCGTCGGCCAGGCGCTGGGCGGGCAC
ATGCGCCGGCACCGCGTCGAGGCCGAGGCGGCCACC------AACGCGCCGAGCAGCAAG---GCCGCGGCGCCCGAGAC
GGCGCTGGCGTCGTGCGACGCCGGCGGGATCTGTCTGGACCTGAA--------CCTGACGCCGTCGGAGAACTGCGCCAA
GTGCAGATGCGCGGCGGGGCTCGGCGCCGCTGCCGGGCAGGGTGTGCATAAGGCGCTCGCCATGTTAGACTGCTCCCTCT
GA------------------------------------------------------------------------------
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>chr3D_1_TraesCS3D01G350100
CTGCTAGTAACAGTATGAATTTCTAGATTCCACGGAGGCAACAAAGGGAGCTCGATCGTTTTGAACAGGGACGTCGCGCC
GCTCGTTCTAGATGATTGGAAACGAGCTATTCGTGTAGATCTCGAACTCTCCGTTCGCCCGGTATAGTCAATAAATGTCG
TGACGGCAGCAACAAAACCACATACACCAACCGGAGAGTGTGTGAAACACTGAAACCCGTGCAG-AGGCTGGGTCGAGAT
CGCTGCCAGCGCGGAAGTAA--AAGAGGCAATAGCACACAAGTCCTAGAACTTGCACAATTTAGACCCAAATTTCAAATT
GTCACATGCAGTTCAAGTTCTAGGGGTGTAGTTTTGCACACTTTAAACTAAAACATCACATTTCGTGCAAATTTTAGGAC
TTGTGGTGCTATTACCTTCAAGAAAAACACGCACACGATACGG-ACGTCCGCCACGACGCCGCACCATGGTCCATCGGGC
ACGTCC----GCAGGTGTCTGCTGTTTATGATTCTGTGGTT-GCTTAGCCGGGTCGCGCAGCCGCCGGCCAGCCAGCCGG
CCGCTCTA----GAAGAGTCAGCTCGATCGCCTGAACACACATGTTGACTTTAGACTAGATACTGCGAT---CTACCT-A
GTCA--------CATGACAAGATTGAACGCAGATTC--------AGTACGGGTCGTACTGTAGACTGTAGTAGTAG----
--ACTAGTAGTAACAAATCTCTCCCACAGC------GCGCGGTCAA-ACAGTCT----GAAAAGTACATGCAGACACGTC
CACGTCTAGAAGCCA---------------ACAAACACTTGCGAGCCACTAGTAGTAG------TCGTGCGTGCGCGCCC
----GTTTCCTACGTGCACCAAACCCC----AACCTCAGGTTGCGC-ACACTATATA---A----GAGGCATCCACCATA
CGG-----GGCAGAGCCACATATGCATTACACAGTGCAGGCCAAGG--------------------TGATACGAACGCAC
GCAAAGTACACT---------------GCGAC-TTTCGACTACCTACCCTAACCGGCCGGCGAGAGATCAAGT------C
CAG-------AC-------TCG--------AG---AGCCATGAGCAAGAGAGGCAGGGATGTGTGGGACATGGAGCTTGG
AGGCCTGGACACGGCTCGCCTGCTCATGCTCCTCGCGCAGCA---------GCACCAGCA---------CCA--------
-GC---------GCGCCGTCGCCGGGGCGGCGCAGGCGATGGGCGGCGGCCGCGTGTTCGAGTGCAAGACGTGCAACCGG
CAGTTCCCCACGTTCCAGGCGCTCGGCGGACACCGCGCCAGCCACAAGCGCCCCAGGCTCCACCAT---CCGCAGCCGCA
GCACGCGACCGGCAGCGTCGACGACGACGACGCGGCGCTCCGCCTCGGCCG---------CCAGGC---------GCCGC
CGCAGCCGGCCAGGCCGAGGGCGCACGAGTGCCCCGTCTGCGGGCTCGAGTTCGCCGTCGGCCAGGCGCTGGGCGGGCAC
ATGCGCCGGCACCGCGTCGAGGCCGAGGCGGCCACC------AACGCGCCGAGCAGCAAG---GCCGCGGCGCCCGAGAC
GGCGCTGGCGTCGTGCGACGCCGGCGGGATCTGTCTGGACCTGAA--------CCTGACGCCGTCGGAGAACTGCGCCAA
GTGCAGATGCGCGGCGGGGCTCGGCGCCGCTGCCGGGCAGGGTGTGCATAAGGCGCTCGCCATGTTAGACTGCTCCCTCT
GATCATTCAGATTGCTCGTGCCCCCTGATGTTCCTCGCGCGCATGGCGGTGGCTGCTGATTGCTTTCCTGCTAAACTGTT
CTATTGGTTTGTTTATTTTATAC-TTTATTTTACACCTTTCACATTTTTTT---GTAATTTTTTAGATGTAAATGTTCAT
AGGCTGGTACGACGGCGTAGTTCTGAAACAGATCAAACATGAACTTTTGCATTTCCTTGCTGTAAATAATACTTCATGAA
ATTTACCACTTATGGTCGCCCTTTTGAATGATTACATGTTGAAAAAGTGTAACAATGTTTGCTTACTACGCTGTTCATTT
CGAAAAGTAAG---------------------------------------------------------------------
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---------------------------------------TCGATTTTCATAAAGTTTCTGTTCCTACTAATGAAGGCTAA
CATTTGTTTCAGCAAGTCAATTTGCATAAAGCTTCTGTTCCTACTAATGAAGGCTAACATTTGTTTCGGCAAGTCAATAT
TCATAAAGTTTCTGTTCCTGCCAATGAAGGCTAGCATTTTCTTCAGAACAGAAAGTCAAATGACAGACATTTCAATTTTT
TTTCATCACAAAAAAAAAAGACATTTCAAAGCCGGTTACGTCAAATAAATAAACACGCCCCCCGCAAAAAAAAAACACGA
GCACAGTCAACCCATTCTGCTTGCAGCAGCATGACAACATGGAACTTTTGTATTGCATTCTTAATAGATAAAGGCTGGAA
ACTGAAAGCAAGGGAACAAACATTCAACAGTTCAAAGACGCTTTCTAACTTTTCACCGGCACATCTAAACAAATAGTATA
AACATATAGAACAAAACAAGGTCTACAGCAGTCCATGGAAACATTCAAGCACACATAACATGTGTCCATCATTCGGGATT
TCAGGTGGTCATTTTTTCATTTACGATCGAAGACAAACTCTACCCACCATTTACAAGGCACGAAACTAACAAAGTTGGCA
TAGCCTATCGCAGTATGCATCGTACTCGCTTCGTCCCATAATATAAGATGTTACTACAACCAATATATGACGGA
>chr3B_1
CTGCTAGTAGTGGTATGAATTTCTAGATTCCACTGAGGCAACAACGGAGCTCG----GTTTTGAACAGGGACGTCGCGCC
GCTCGTTCTAGATGATCTGGATGGAGCTATTCGTGTCGATCTCCAAATCTCCGTTCGCCCGGT-----CAATAAATTAGG
TGACGGCAGCAACAAAACCACATACACCAACCGGAGAGTGTCTGAAACACTGAAACCCGTGCAG-AGGCCCGGTCGAGAT
CGCCGCCGGCGCCGAAGTGTATAACACGCACCATGATGAATGAATGAATCAAAGTCAGAACGCCACGC------------
--------------------------------------------------------------------------------
---------------------------CACGCACACGCTACGG-ACGTCGCTCGCGACGCCGCACCATGGTCCATCGGGC
AGGTCC----GCAGGTGTCTGCTGTTTACGATTCTGTGCTTTGCTTAGCCGGGGCGCGCAGCCGCCGGCCAGCCAGCCGG
CCGGTCTAGAAGGAAGAGTCAGCTCGATCGCCTGAACACACATGTTGACT--AGACTAGATACTGCGAT---CTACCT-A
GTCA--------CATGACAAGATTGAACGCAGATTC--------TGTACGGGTCGTACTGTAGACTCTAGTAGTAG----
-----ACTAGTAACTAATCTCTCTCACCAA------GCG--GTCAA-ACTCCAG----GAAAAGTACATGCAGACACGTC
CACGTCTAGAAGCCA---------------ACAAACACTTGCGAGCCGCTAGTAGTAG------TCGTGCGTGCGCGCCC
----GTTTCCTACGTGCACCAAACCCC----AACCTCAAGTAGCGCCCCACTATATA---A----GAGGCATCCACCATA
CGG-----GCCAGAGCCACATATGCATTACACAGTGCAGGCCAAGG--------------------TGGTACGAACGCAC
GCAAAGTACACT---------------GCGAC-TTTGGACTACCTACCCTAACCGGCCGGCGAGAGATCAAGT------C
CAG-------AC-------TCA--------AG---AGCCATGAGCAAGAGAGGCAGGGATGTGTGGGACATGGAGCTTGG
AGGCCTGGACACGGCCCGCCTGCTCATGCTCCTCGCGCAGCA---------GCACCAGCAGCATCAACACCA--------
-GC---------GCGCCGTCGCCGGGGCGGCGCAGGCGATGGGCGGCGGGCGCGTGTTCGAGTGCAAGACGTGCAACCGG
CAGTTCCCCACGTTCCAGGCGCTCGGAGGGCACCGCGCCAGCCACAAGCGACCCAGGCTTCAACAGCACCCGCAGAAGCC
GCACGCGAT---CGACAGCATCGACGACGGCGCGGCGCTCTGCCTCGGCCGCCGGGCGCCCCAGGC---------GCCGC
CGCTGCCGGCCAAGCCGAGGGCGCACGAGTGCCCCGTCTGCGGGCTCGAGTTCGCCGTCGGCCAGGCGCTGGGCGGGCAC
ATGCGCCGGCACCGCGTCGAGGCCGAGGCCGCCACC------AACGCCCCTAGCGGCAAG---GCGGCGGAGCCCGAGAT
GGTGGTCGCCTCGTGCGACGCCGGCGGGATCTGCCTGGACCTGAA--------CCTGACGCCGTCGGAGAACTGCACCAA
GTGCAGGAGCGCGGCGGGGCTCAGCGCCGCTGCCAGGCAGGGCGTACACAAGGCGCTCGCCATGTTAGACTGCTCCCTCT
GATCATTCCGATCGCTGGACCACTCCAT------------GCATGGTGGTGGCTGCTGATTGCTTTCCTGCTAAACTGTT
CTATTGGTTTGTTTA-TTTATAC-TTTACTTTACACCTTTCACATTTTTTT--TGTAAATTTTTAGATGTAAATGTTCAT
AGGCTGGTGCGCCGGCGTAGTTCTGAAACAGATCAAACATGAACTTTTGCATTTCCTTGCTGTAAATAATACCTCATGAA
ATTTACCACTTATGGTCGCCCTTTTGAAGCATTGCATGTTGAAAACGTGTAATAATG------TACTACGCTGTTCATTT
CGAAAAGTAAG---------------------------------------------------------------------
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---------------------------------------TCAATTTTCATAAAATTTATGTTCCTACTAATGAAGGCTAA
CATTTGTTTCAGCAAGTCAATTTGCATAAAGTTTCTGCTCCTACTAATGAAGGCTAAC----------------------
-----------------------------------ATTTTCTTCAGAACACAAAGTCAAATGACAGACATTTCAATTTAT
TTCTTCGC--AAAAAAAAAGACATTTCAAAGCGGGGTACAGTCA---------------------AAAAAATAAACACGA
GCACCGTCAACCCATTCTGCTTGCAGCAGCATGACAACATGTAACTTCTGTATTGCATTCTTAACAGATGAA---TGAAA
ACTGAACGCAAGGAAATAAACATTCAACAGTTCAAAGACGTTTTCTAACTTCTCACCGGCACATCTAAACAAGTATAAAC
ATATAGTAGAACAAAACAAGGTCTAAAGCAGTCCATGGAATCATTCGAGCACACATAACATGTTTTCATCATTCAGGAAT
TCAGGTGGTCATTTTTTCATCGACGATCAAAGACAAACTCTACCCGCCATTTACAAGGCACGAACTGAACGAAGTTGGCA
TAGTCTAACCCAATACACATGGTACTATCTCCGTCCCATAATATAAGATGTTATTACAACCAATATGTGACAGA
>chr3D_183
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----------------------TACACCAACCGGAGAGTGTGTGAAACACTGAAACCCGTGCAGCAGGCCGGGTCGAGAT
CGCCGCCCGCGAGGAAGTAA--AACACGCACGCATGG---TGAATGAACCAAAGGCAGGTCGCCACCCGCGCACAC----
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------------------------------------------GCTCCGCCGCGGCGCGCGGCTGCCAGTCGGGCGGCTGG
CTGCTCTA----GAAGAGTCAGCTCGCTCGAAC--ACACACATGTTGACT--AGACTAGCTACTACTCCTAGCTAGAC--
-TCA--------CATGACGAGATTGAACGTAGATCG--------TGTACGTACCGTAGCACTA-----------------
--------------------CTCTCACACCACGCGGGCGCGGTCAA-ACGGTCA----GAAAAGTACATGCACACACGTC
CACGTCTAGAAGCCACCCGTACGTACTCCAAGAAAGACTTTGCTGGGC--CCTAGTGG------TCGTGCGTGCGTGCCC
CA---TTTCCTACGTGCACCAAACCCC----AAGTAGG----------CACTATATATATA----GAGGCATCGGCCAGA
CAAGACAACCCAGAGCCACATATGCATTACACAGTGCAGTAATCAGCCGATTAGCCGAAAGTGATTTTACACGATCCATC
GAGTAGCACACC---------------GCCAC-TTTTGATCGGGGG-----ACTAGCCTGCCAGGGATCGAGTATTGGTC
CAG-------AC-------TCGAGA----GACGTCGGCCATGAGCAAGAGAGGCAGGGGCGTGTGGGACGTGGAGCTGGG
CAGCCTAGACACGGCCCGCCTGCTCATGCTCCTGGCGCAGCA---------GCGCCAGCA---------TCA--------
-GCACCACCAGAGCGGCGTCGCCGGGGCGCCGCAGGCAATGGGCGGCGGCCGCATGTTCGAGTGCAAGACGTGCAACCGG
CAGTTCCCCACGTTCCAGGCGCTCGGGGGACACCGCGCCAGCCACAAGCGCCCTAGGCTGCACCAC---ACACCCCCGCA
GCACGCGCT---CGTCCGCGTCGACGACGACGCAGCGCTCTGCCTCGGCCGCC---------GGGCTCCCCAGGCGCCGC
CGCAGCCGGCAAGGCCGAGGGTGCACGAGTGCCCCGTCTGCGGGCTCGAGTTCGCCGTCGGCCAGGCGCTGGGTGGGCAC
ATGCGCCGGCACCGCGTTGAAGCCGAGGCCGAGGCCGGGGCCAACGCCCCGAGCAGCAAGGCGGCAGCGGCGACCGAGAT
GGTGGTGGCCTCGTGCGACGACGGAGGGATCTGCCTGGACCTGAA--------CCTAACGCCTTCGGAGAACTGCGGCAA
ATGCAAGAGCGCGGCGGTGCTCCGTGCCGCTACTGGGCAGGGTGTACATAAGGCGCT-----------------------
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>chr3A_426
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----------------------------ACGAACACGCTACGCTACGTCGGTCGCGACGCCGCACCATGG-CCATCGGGC
ACGTCC----GCAGGTGTCTGCTGTTTACGATTCTGTGC-TTGCTTAGCCGGGGCGTG-----------CAGCCAGCCGG
CCGGTCTA----GAAGAGTCAGCTCGATCGCCTGAACACACATGTTGACT--AGACTAGATACTGCGAT---CTACCTTA
GTCA--------CATGACAAGATTGAACGCAGATTC--------AGTACGGGTCGTACTGTAGACTCTAGTAG-------
-----ACCAGTAACTAGTCTCCTTCAGAGA------GCGCGGTCAA-ACTTCCCGATCGAAAAGTAGACGCAGACACGTC
CATGTCTGGAAGCCA---------------ACAAACACATGA-AGCCACTAGTAGTAG------TCGTGCGTGCGCGCCC
----GTTTCCTACGTGCACCAAACCCC----AACCTCAAGCTGCGC-ACACTATATA---A----GAGGCATCCACCATA
CGG-----GCCAGACCCACATATGCATTACACAGTGCAGGCCAAGG--------------------TGGTACGAACGCAC
GCAAAGTACACT---------------GCGAC-TTTCGACTACCTACCCTAACCGGCCGGCGAGAGATCAAGT------C
CAG-------GC-------TCGAGAAGTCGAG---AGCCATGAGCAAGAGAGGCAGGGATGTGTGGGACATGGAGCTGGG
CAGCCTGGACACGGCCCGCCTGCTCATGCTCCTCGCGCAGCAGCACCAGCAGCACCAGCA---------CCA--------
-GC---------GCGCCGTCGCCGGGGCGGCGCAGGCGATGGGCGGCGGCCGCGTGTTCGAGTGCAAGACGTGCAACCGG
CAGTTCCCCACGTTCCAGGCGCTCGGAGGGCACCGCGCCAGCCACAAGCGCCCCAGGCTGCACCAT---CCGCAGCCGCA
GCTCGCTCT---CAGCAGCGTCGACAACGACGCGGCGCTCCGCCTCGGCCGCC---------AGGC---------GCCGC
CGCAGCCGGCCAGGCCGAGGGCGCACGAGTGCCCCGTCTGCGGGCTCGAGTTCGCCGTCGGCCAGGCGCTGGGCGGGCAC
ATGCGCCGGCACCGCGTCGAGGCCGAGGCCGCCACC------AACGCGCCGAGCAGCAAG---GCCGCGGCGCCCGAGAC
GGCGCTGGCGTCGTGCGACGCCGGCGGGATCTGCCTGGACCTGAA--------CCTGACGCCGTCGGAGAACTGCGCCAA
GTGCAGGAGCGCGGCGGGGCTCGGCGCCGCTGCCGGGCAGGGCGTACACAAGGCGCTCGCCATGTTAGACTGCTTCCTCT
GATCATTCAGATTGCTCGTGCCCCCTGATGTTCCTCGC----ATGGCGGTGGCTGCTGATTGCTTTCCTGCTAAACTGTT
CTATTGG----TTTATTTTATACTTTTATTTTATATCTGTTAGATTTTTTTGTTGTAAATTTTTAGATGTAAATGTTCAT
AGGCTGGCACGCCGGCGTAGTTCTGAAACGGATCAAACATGAACTTTTGCATTTCCTTGCTGTAAATAATACTTCATGAA
ATTTACCACTTATTGTCGCCCTTTTGAATCATTACATGTTGAGAACGTGTAATAATGTTTGCTTACTAGGCTGTTCATTT
CGAAAAGTAAGAGGGTGCTTGGATCCAAAAGACTTATTTTAGTCTTATTAAAAATAGTCTCTTTAAGAGGCCAAAGTTTC
AAGCACCCCTGACTAAAGAGGGGCTAAAACTAGTCTTAAGACTAAAAAAATTTAGTCTGGGGTACCCCTACTAGAATGTG
AATTAGTCCTCTCTCTTCTCATTTAAGTTCTCTCCTTTAACACAGGCAAGTTCTGGATTGGAGGGTTTGGACGATAATAA
ATGCTCATTAACTTGATTTTAGTCTTTTTAGTATTTGAATCCAAGCATGAATGAGGCTAGCAAGTTTTAGTCCCACTACT
TTTAGTCATGGGACTAAAACGTATCAAGCACCCTCTAAGTCGATTTTCATAAAGTTTTTGTTCCTACTAATGAAGGCTAA
CATTTGTTTCAGCAAGTCAATTTTCATAAAGTTTCTGTTCCTACTGATGAAGGCTAGC----------------------
-----------------------------------ATTTTCTTCAGAACACAAAGTCAAATGACAGACATTTCAATTTTT
ATTTCATCAC-AAAAAAAAGACATTTCAAAGCCAATTACGTCAAATAAATAAACACGTCCCCCGCAAAAAAAACAT--GA
GCACAGTCAACCCATTCTGCTTGCAGCAGCATGACAACATGGAACTTTTGTATTGCATTCCTAATAGATAAA---TGAAA
ACTGGACGCAAGGAAACAAACATTCAACAGTTCAAAGACGCTTTCTAACTTTTCACCGGCACATCTAAACAAGTAGTATA
AATATATAGAACAAAACAAGGTCTACAGCAGTCCATGGAAACATTCAAGCACACACAACATATGTTCATCATTCAGGATT
TCAGGTGGTCATTTTTTCATTGACGATCAAAGACAAATTCTACCGACCATTTACAAGGCACGAAACTAACAAAGTTGGCA
TAGCCTAACGCAGTATGCATGGTACTCGCTCCATCCCGTAATATAAGATGTTATTA-AACCAATATGTGACGGA
>chr3D_452
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-------------------------------------------------------GACGCCGCGCCACGGTCCATCGGGC
AGGTCCGCATGCAGGTGTCTGCTGTTTACGATTCTGTGG-TTGCTTAGCCGGGGCGCGCAGCCGCCGGCCAGCCGGCCGG
CCGGTCTA----GAAGAGTCAGCTCGATCGCCTGAACACACATGTTGACT--AGACTAGATACTGCGAT---CTACCT-A
GTCA--------CATGACAAGATTGAACGCAGATTC--------GGTACGGGTCGTACTGTAGACTCTAGTAG-------
-----ACCAGTAACTAATCTCCCTCAGGGC------GCGCGGTCAA-ACTTCCCGATCGAAAAGTAGACGCACACACGTC
CACGTCTGGAAGCCA---------------ACAAACACTCGCGATCCACTAGTGGTAGTCGTGCTCGTGCGTGCGCGCCC
----GTTTCCTACGTGCACCAAACCCCGGAGAACCTCAAGCTGCGCCACACTATATA---A----GAGGCATCGACCATA
CGG-----CCCAGAGCCACATATCCATTACACAGTGCAGGCCAAGG--------------------TGGTACGAACGCAC
GCTAAGTACGCT---------------GCGAC-TTTCGGCTACCAA-CCTAACCGGCCGGCGAGAGATCAAGT------C
CAG-------AC-------TCGAGA----GAG---AGCCATGAGCAAGAGAGGCAGGGATGTGTGGGACATGGAGCTGGG
CAGCCTGGACACGGCCCGCCTGCTCATGCTCCTCGCGCAGCAGCACCAGCA------------------CCA--------
-GC---------GCGCCGTCGCCGGGGCGGCGCAGGCGATGGGCGGCGACCGCGTGTTCGAGTGCAAGACGTGCAACCGG
CAGTTCCCGACGTTCCAGGCGCTCGGAGGGCACCGCGCCAGCCACAAACGCCCCAGGCTCCACCAT---CCGCAGCCGCA
GCACGCGAC---CGGCAGCGTCGACGACGGCGCGGCGCTCTGCCTCGGCCGCC---------GGGC---------GCCGC
CGCAGGCGGCCAGGCCGAGGGCGCACGAGTGCCCCGTCTGCGGGCTCGAGTTCGCCGTCGGGCAGGCGCTGGGTGGGCAC
TTGCGCCGGCACCGTGTCGAGGCCGAGGCCGCGGCC------AGAGCGCCGAGCTGCGAG---GCGGCGGCGACCAAGAC
GGAGTTGGCGTCGTGCGACGCCGGCGGGATCTGCCTGG-CCTGAA--------CCTGGCGCCTTCGGAGAACTGCGCCAA
GTGTAGGAGCGTGGCGGGGCTCGGCGCTGCTGCCGGGGAGGGTGTG----------------------------------
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>chr3B_545
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-------------------------------------------------------------------------CAGCCAG
CCGCTCTA----GAAGAGTCAGCTCGTTCGAAC--ACACACATGTTGACT--AGACTAGCTACTGCCACTAGCTAGAC--
-TCA--------CATGACGAAATTGAACGTAGATCGGGACTACGTGTACGTACCATAG----A-----------------
--------------------CTCCCACACCGCGCGGGAGCGGTCAA-ACAGCCA----GAAAAGTACATGCACACACGTC
CACGTCTAGAAGCCAGCCGTACGTACTCCAACCAAGACTTGG-TGGGC--ACTAGTGG------TCGTGCGTGCGTGCCC
CA---TTTCGTACGTGCACCAAACCCC----AAGTAGG----------CACTATATAT--A----GAGGCATCGGCCAGA
CAAGACAACCCAGAGCCACATATGCATTACACAGTGCAGCAATCAGCCGATTAGCCGAAAGTGATTTTACACGATC----
GAGTAGCTCGCC---------------GCGAC-TTTTGGTCGGGGG-----ACTAGCCCGCCAGCGATCGAGT------C
CAG-------AGCCGACTGTCGAGA----GCCATCGGCCATGAGCAAGAGAGGCAGGGGCGTGTGGGACATGGAGCTGGG
CAGCCTCGACACGACCCGCCTGCTAATGCTCCTCGCCCAGCAGCACCAGCA------------------CCAGCACCACC
ACC---------GCGGCGTCGCCGAGGCGGCGCAGGCGATGACCGGCGGCCGCGTGTTCCAGTGCAAGACGTGCAACCGG
CAGTTCCCCACGTTCCAGGCGCTCGGGGGACACCGCGCCAGCCACAAGCGCCCCAGGCTCCACCAC---CCACCCCCGCA
GCACGCGCT---CGTCGGCGTCGACGACGACGCAGCGCTCTGCCTCGGCCGCC---------GGGCGCCCCAGGCGCCGC
CGCAGCCGGCCAGGCCGAGGGTGCACGAGTGCCCCATCTGCGGGCTCGAGTTCGCCGTCGGCCAGGCGTTGGGTGGGCAC
ATGCGCCGGCACCGCGTCGAAGCCGAGGCCGAGGCCGGGGCCAACGCCCCGAGCAGCAAGGCGGCGGCGGCGACCGAGAT
GGTGGTGGCTTCGTGCGACGACGCCGGGATCTGCCTGGACCTGAA--------CCTGACGCCTTCGGAGAACTGCGCCAA
ATGCAAGAGCGCGGCGGTGCTCCGTGCCGCTACTGGGCAGGGTGTACATAAGGCGCT-----------------------
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>chr3D_547
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---------------------------------------------------------------------------GCCGG
CCGCTCTA----GAAGAGTCAGCTCG----CCTGAACACACATGTTGACC--AGACTAGATACTGCTAT---CTAGAC--
-TCCCATGATGCCATGACAAGATTGAACGCAGATCCGTACGGGTGGTATACTT----------ACTGTAGTAGACTGGTA
GTACTACGAGTAACTAATCTCTGGCACC--------GCGCGGTGAA-ACTTCCCCATCGAAAAGTAGATGCACACACGTC
CACGTCTAGAAGCCAGCC-----------AACAAACACTTGCGAGCCACTAGTACTAG------TCGTGCGTGCGCGCTC
ATTTGTTTCCTACGTCCACCAGACCCC----AAC-TCAAGTTGCG-CACACTGTATA---A----GAGCCACCAGACATA
CGG-----GCCAGAGCCACATATGCATTACACAGTGCAGCCGAGAGCCA------------------TACACGATC----
CAGTAGCACAGC---------------GCGACTTTTTGATCGCGGG-----ACTAGCCTGCCAGCGATCGAGT------C
TCAAGTCTCAAC-------TCGAGA----GACAT----CATGAGCAAGAGGGGCAGGGATGTGTGGGACATGGAGCTGGG
CAGCCTTGACACGGCCCGCGTGCTCATGCTCCTCGCGCAGCAGCACCA------------------------GCACCACC
ACC---------GCGGCGTCGCCGGGGCAGCGCAGGCGATGGGCGGCGGCCGCGTGTTCGAGTGCAAGACGTGCAACCGG
CAGTTCCCCACGTTCCAGGCGCTCGGGGGGCACCGCGCCAGCCACAAGCGCCCCAAGCTGCAGCAC---CCGCAGCTGCA
C---GCGGT---TGGCAACGCCGACGACGGCGCGGCGCTCTGCCTCGGCCGCC---------AGATGCCCCCGGTGCCGC
C---------AAGGCCGAGGGTGCACGTGTGCCCCGTCTGCGGGCTCCAGTTCGCCGTCGGCCAGGCGCTGGGTGGGCAC
ATGCGCCGGCACCGTGTTGAGGCCGAGGCCGCGGCC------ACATGCGCCG----------------------------
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>chr3B_678
TA------------------------------------------------------------------------------
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-----------------------------------------------------------------------------GTA
CTACTACCAGTAACTAATCTCTCTCACACC------GCGCGGTCAAAACTTCCCGATCGAAAAGTAAATGCACACAGGTC
CACGTCTAGAACCCAGAC-----------AACAAATACTTGCGAGCCACTAGTAGTAG------TCGTGCC---------
------------------CCAAACCCCGGCCCAAC----------CCACACTATATA---A----GAGCCATCAGCCATA
CGG-----GCCAGAGCCACATACGCATTACACAGTGCAGCG-------------------------------GGTC----
GATTAGCACAAC---------------GCCACTTTTTGATCCGGGG-----ACTAGCCTGCCAGCTATCGCGT------C
TCAAGTCTCAAC-------TCGAGA----GACATCAGCCGTGAGCAAGAGGGGCAGGGATGTGTGGGACATGGAGCCGGG
CAGCCTGGACACGGCCCGCCTGCTCATGCTCCTTGCGCAGCAT---CAGCA------------------GCACCAGCACC
AGC---------GCGCCGTCGCCGGGGCGC---AGGTCATGGGCGGCGGCCGTGTGTTCGAGTGCAAGACGTGCAACCGG
CAGTTCCCCACGTTTCAGGCGCTGGGGGGTCACCGTGCCAGCCACAAGCGCCCCAAGCTGCACCAC---CCGCAGCTGCA
C---GCGGT---TGGCAATGCCGACGACGGCGCGGCGCTCTGCCTCGGCCGCC---------AGATGCCCCCGGTGCCGC
CGCAGCCGCCAAGGCCAAGGGTGCACGAGTGCCCCGTCTGCGGGCTCCAGTTCGCCGTCGGCCAGGCGCTGGGTGGGCAC
ATGCGCCGGCACCGTGTCGAGGGCGAGGCCGCAGCC------AGAGCGCCGAGCTGCGAG---GCCGAGGCGACCAAGAC
GGCGTTGGCGTCGTGCGACGCCGGCGGGATCTGCCTGGACCTGAACGGCTGAACCTGACGCCTTCGGAGAACTGCACCAA
GTGTAGGAGCGTGGCGGGGCTCGGCACTGCTACCGGGCAGGTTGTACATAAGGGCATCTCCA------------------
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>chr3A_715
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---------------------------------------CGGTCAA-ACAGCCA----GAAAAGTACATGCACACACGTC
CACGTCTAGAAGCCAGCCGTACGTACTCCAACAAAGACTTGG-TAGGA--ACTAGTGG------TTGTGCGTGCGTGCCC
CA---TTTCCTACGTGCACCAAACCCC----AAGTAGG----------CACTATATAT--ATACAGAGACATCGGCCAGA
CAAGACAACTCAGAGCCACATATGCATTACACAGTGCAGTAATCAGCCGATTAGCCGAAACTGATTTTACACGATC----
GAGTAGCTCGCC---------------GCGAC-TTTTGATCGGGGG-----ACTAGCCTGCCAGCGATCGAGT------C
CAG-------AC-------TCGAGA----GACATCAGCCATGAGCAAGAGAGGCAGGGGCGTGTGGGACGTGGAGCTGGG
CAGCTTCGACACGTCCCGCCTGCTCATGCTCCTCGCGCAGCAGCA---------------------------GCACCACC
AGC---------GCGGCGTCGCCGGGGCGCCGCAGGCGATGGGCGGCGGCCGCATGTTCGAGTGCAAGACGTGCAACCGG
CAGTTCCCCACGTTCCAGGCGCTCGGAGGACACCGCGCCAGCCACAAGCGCCACAGGCTCCAGCAC---CCACCCCCGCA
GCACGCACT---CGTCGGCGTCGGCGACGACGCAGCGCTCTGCCTCGGCCGCC---------GGGCGCCCCAGGCGCCGC
CGCAGCCGCCCAGGCCAAGGGTGCACGAGTGTCCCGTCTGCGGGCTCGAGTTCGCCGTCGGCCAGGCGCTGGGCGGGCAC
ATGCGCCGGCACCGCGTCGAAGCCGAAGCTGTGGCCGGGGCCAGCGCCACGAGCATCAAGGCAGCGGCGACGACCGAGAT
GGTGGTGGCCTCGTGCGACGACGGCGGGATCTGCCTGGACCTGAA--------CCTGACGCCTTCGGAGAACTGCGCCAA
GTGCAGGAGCGCGGCGGCGCTCGTCGCCGCTACCGGGCAGGGTGTACATAAGGCGCT-----------------------
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>chr3A_854
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-----------------------------------------------------TATA---A----GAGCCACCAGCCATA
CGG-----GCCAGAGCCACATATGCATTACACAGTGCAGCC-------------------------------GATA----
GATTAGCCGAGAGCGATACACGACCGAGCGACTTTTTGATCGGGGG-----ACTAGCCTGCCAGCGATCGAGT------C
TCAAGTCTCAAC-------TCGAGA----GACATCAGCCATGAGCAAGAGAGGCAGGGATGTGTGGGACATGGAGCTTGG
AGGCCTGGACACGGCCCGCCTGCTCATGCTCCTCGCGCAGCAGCACCAGCA------------------GCACCACCACC
AGC---------GCGCCGTCGCCGGGGCGGCGCAGGCCATGGGCGGCGGCCGCGTGTTCGAGTGCAAGACGTGCAACCGG
CAGTTTCCCACGTTCCAGGCGCTCGGGGGCCACCGCGCCAGCCACAAGCGCCCGAAGCTGCAC-----------------
----GCGGT---TGGCAACTCCGACGACGGCGCGGCGCTCTGCCTCGGCCGCC---------AGATGCCCTCGGTGCCGC
CGCAGCCGCCAAGGCCGAGGGTGCACGAGTGCCCCGTCTGCGGCCTCCAGTTCGCCGTCGGCCAGGCGCTGGGTGGGCAC
ATGCGCCGGCACCGTGTCGAGGCCGAGACCGCAGCC------AGAGCGCCGAGCTGCGAG---GCGGCGGCGACCAACAC
GGAGTTGGCGTCGTGCGACGCCGGCGGGATCTGCCTGGACCTGAA--------CCTGACGCCTTCGGAGAACTGCGCCAA
GTGTAGGAACGTGGCGGGGCTCGGCGCTGCTACCGGGCAGGGTGTACATAAGGCGCT-----------------------
--------------------------------------------------------------------------------
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--------------------------------------------------------------------------
>SNPs
---------SSS---------------------S----------S--SSSSSSSSSS-----------------------
----------------SS-S-SS-------------S------S--S----------------SSSSS--------SSS-
---------------------------------------------------------------------S----------
---S---S----------------S-S---SS-SS-SSS-S-SSSS-SSSSSS-SSSS--SSSS----SSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSS----------S-----------S-S-S--------------------------
----------------------------S------------------------S--------------------------
--------------------------------------------------SS----------------------------
--------------------------------------------------------------------------------
------S-------S--------------------------------------S--------------------------
--------------------------------------------------------------------------------
--------------------------------------S-----------------------------------------
---------S----------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
---------------S----------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------S-----------------------------------------------------
---------SSS-----S--S-----------------------------------------------------------
--------------------------------------------------------------------------------
-----------------------------S--------------------------------------------------
---------------------------------S----------------------------------------------
------SS------------------------------------------------------------------------
--------------------------------------SS----------------------------------------
----------------------------------------------------------S---------------------
-----------S--------------------------------------------------------------------
-----------------------------S---------------S------S---------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
---------------------------------------------------------S----------------------
-------------------------------S--------------------------SSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS---------------S-----------------------------
---SSSSSSS-----------------------------------------------S----------------------
------------------------------------------------------------------------SSS--S--
------S------S----------------------------------------------------------S-------
--S--------------------------------------------------------------S--------S-----
---------------------S------S---------------------------------------------------
-------S------------S---------S----------------------S------------S-------
>forward_56
------------------------------------GGCAACAAAGGGAGCTCGAT------------------------
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>reverse_2012
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-----------ACGGCGTAGTTCTGAAACAGA------------------------------------------------
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--------------------------------------------------------------------------
