>input_sequence_79868
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------------------------------------------ATGGAGAACCCGCTGCTGGAGATGGTGATCAGAGGCCT
GCCTCTCCTCGTCGACGACGTCGACCTCGCCCAGAGCCTCCTCGACCTCGTCCATGCCGAGATCGACCGGACCGAAGCCC
GCCTCGGCGAGGTGGCGGCCCAGCTAGAGCAAATCCAGGGCCTGGCCTTGGAGTTGGAGGGAATGCGCCTGGCCCTCCCC
GTGGCAACGGAGGAGCTGCTCGCGGCGAACGAGGCCAGCTTCCACGCCCTCCTGCGCCAGCAGCGGCATCTCACCCAGGC
CGTCCAAGTGCTCCTCGTCCTCCGGGCGGCCGCCTACACCAGGAGCCGCTCGCACCTCGTCCCCGGCGTGCTCCTCGCGG
CCGCGTCGGCGGCGGTGGCGCCCGGGTTCAGGACCTTCGTCAGGTTCTCCGTCTTGGTGCTGGGTTTCCTCTTCGCTTCT
GGTCGTG------GAGGGTAA-----------------------------------------------------------
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>chr3D_1_TraesCS3D01G257200
ACGGGTCGCCGCCGATCTGAGCCGCCGCATCGGCCAGACCAGATCTGTCCGGAGGACAAACCACACATGGCGCCGACCCA
ACCACCAGGCCCTATATGCCACCACCGCCGAACCGAGGTCAGATGGTCCATCGCCGCCGACTCGGCCGCCGCCGCCGAAC
GCAGCCAAGGCCGCTGCCCGAAGCAAGGCCAGCCGCCACACCCGCCACCATCCGCCCTAGGCCGAGGCGGCCGCCGCGCC
GCCGCCGGAAGGCAGGCCCGCCACGCCACCAAGGCCAGATCGGCCGTGCCTCCACACACCGCGGGGCTCCGCACCGCCCC
CATGGCGCAGGAGAGAGGGAAGGCCCCCGCCCCCGCCGTCAGCCCCCGGGCTATAGGCCGGCGGCGGCAGAGGGAGGGGT
AGAAGGACGGGGAGCCCCGGCGACTAGGGTTGCGTCCCGCCCGAGTCGCCCGAGCGGGGCGACGCGGGGGGTGGGGGGTG
GTGGAACACAGCGGGGGCGACCAGATCATATCTGAAATCAAACTTCGAGTTTTAGATTTTAATCGTTCTTTCTGTTTCGA
GGGTCAGACGTTGAATATCAAAACTCATTTACTAGTTAAGTTTTCTCATTCGTTAAATCCAGGGCACCATGTATGGTTGG
GCCAACCCCACGATCTTAGTTGTATCCCCCGTAGGATGTGAACTAAAAACCTAATTTA----------------------
-----------------------------------------------------------------------GGAGCAGTT
GCGTTGGTGCCATTGGGGAGAATATCAGGTAATACCACCACTTGTATGCTCCCATGATACCAATTTAAAAATGTCAAAAT
TAAATGTTTCCAAAAATTCTCCCGGTGCCATTGTTTGTCTAGCCAGTCCACAAACTTCAAGCGCAAGTTCTGATCCAGCC
CCGGGC--------------------------------------------------------------------------
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------------------------------------------------------------------AGTCGGGCAACGTT
CTGATTTCTTAATGTCGCGACACCTCCTCGGCCCCACTACGATCCCCAT-----CCCACTTTCCCCTTTCCAGTCAAAAA
CCCTC----GCCACGCCCCAAGCAAGTCCCAACCCAGCCCGAATGGAGAACCCGCTGCTGGAGATGGTGATCAGAGGCCT
GCCTCTCCTCGTCGACGACGTCGACCTCGCCCAGAGCCTCCTCGACCTCGTCCATGCCGAGATCGACCGGACCGAAGCCC
GCCTCGGCGAGGTGGCGGCCCAGCTAGAGCAAATCCAGGGCCTGGCCTTGGAGTTGGAGGGAATGCGCCTGGCCCTCCCC
GTGGCAACGGAGGAGCTGCTCGCGGCGAACGAGGCCAGCTTCCACGCCCTCCTGCGCCAGCAGCGGCATCTCACCCAGGC
CGTCCAAGTGCTCCTCGTCCTCCGGGCGGCCGCCTACACCAGGAGCCGCTCGCACCTCGTCCCCGGCGTGCTCCTCGCGG
CCGCGTCGGCGGCGGTGGCGCCCGGGTTCAGGACCTTCGTCAGGTTCTCCGTCTTGGTGCTGGGTTTCCTCTTCGCTTCT
GG------TCGTGGAGGGTAATGTGGCTCCAGAAGCGTCCCTCACTTCGTATAATCGATGCCCGTTAATTCCACTTTCCT
TGTCATGTTGTTTGCTCTGTTGGTGATACAGATCTGAGACATGGTAATTGCTGAATGCTGACACACACCATTCGAGGTTT
TGGGGGGTTGAAAATTTTCTTTTGTTTGGTGGTGTTGGGGGTGGGTCGCCCATCATAAAGTTGCCGAAATTTCGATTATG
GACAAAAAGGCATAAATTTTCATTTAAATT---TAAGTGAAATTCGAGCAATGTCTTGTGAGGATTTGAATCGTGTTCAA
TTTAACTTGAATTCACGTGTTATGGATTTTGTTTTAGCTGAAATGTCTATATTTTGGTACCAATGATAGGACCAATTCCA
AACATTTCAGTAAACATT-ATATTTCGCATCCCTTATATTCTGGGCCGTCTTTCATAATTTACATCAAGTTGATTGGGAC
CCGGATTTGGTGAACATGGGTGCACGCGCACTCTTTATAAATAGTAAATTTAAAATAATGCTAGAAAAAATTAAAAATAT
CTGATTTTTTAAATTATACATAGTCAACCAGTATACTCGCATATGAAGTTTCATGAAGAAATCACATCCGTGGTAATCTG
GACAAAAATGACAAAATCGAAGCTATATTAAAAAACATCGTTTAATGAATAGTATGGCCGCATTTGTATTTTCTTCACTA
AGAATACGATGGGTGTCAATACATCATGAAACTTCACACGTGAGTAGAATGATCGACTCAGGTTCATACCGCAAAATTTT
AGAATTTGTTATTTTTTCTAGTATTTTTTATGAATTTACTATTCACGTGGGTGCGCGCACACCCATGTTCACCTTTGTAT
TTTCAAGTTGATTGTTACTATATTGGCTATAGGTCGTGAATAGTGAATCCTATCTTTCTCGGGTTTGTTATACCGCTACT
TGGATTCTGCTTCAGTTTGTTGGTAGCTTCCATTGACACTACTTGGCGCATATATCTTCTCCATA
>chr3A_504
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-----------------------GATCATGTTTGAAATCAAACTTTGAGCTTTGTATTTTAATTGTCTTTTATGTTTCGA
GGGTCAACA-TTGAATATCAAAACTCATTCACTAGTTAAGTTTTCTCATTCGTTAAATCCAGGGAACCATGTATGCTTTG
GCCAACTCCACGATCTTAGTTGTATCCCCCTTAGGATGTGAACTATGAGTAACAAAGCTTGGTTCTTCTGGAAAAACTAA
TTCAGGAACACTCCCTCCGTAAATTAATATAAGAGCGTTTAGAGTAAATGCTCTTATATTAGTTTACGGAGGGAGTAGTT
GCATTGGTGCCATTGGGGAGAATATCAGCTAATACCATCACTTGTATGCTTCCATGATACCAATTTAAAAATGTTAAATT
TAAATGTTTCCAAAAATCTATTGGTTT-CATTGTTTGTCTAGCCAGTACAC-AACTTCAAGCGCAAGTTCTGATCCAGCC
CCGGGCGGACGAGACTTGCCTGCTCCCCCGGCGTGTGCCCATCCGTGCTCCCGCGTACGTGGCTTGATTTGATTGAAAGA
AGATAAGGTCCGGCCCCATCCCCTTAAAATCAGAGGAGGAGATGATTAGATTAAAAAGAAAAGAGGAAAAAAGACAATCA
TAGGATAAAGTGAGAGCACGGATGAGAGCATGGGGAAGGAGCTGGCAAGCCGGATCCGCCCCGGGCAGGCGGGCAACGTT
CTGATTTCTGAATGTCGCGACACCTCCTGGGCCCCACTACGATCCCCATCCCCACCCACTTTCCCCTTTCCAGTCAAAAA
CCCTCCCTCGCCACGCCCCAAGCAAGTCCCAACCCAGCCCCAATGGAGAACCCGCTGCTGGAGATGGTGATCAGAGGCCT
GCCTCTCCTCGCCGACGACGTCGACCTCGCCCAGAGCCTCCTCGACCTCGTCCATGCCGAGATCGACCGGACCGAAGCCC
GCCTCGGCGAGGTGGCGGCCCAGCTCGAGCAAATCCAGGGCCTGGCCTTGGAGTTGGAGGGAATGCGCCTGGCCCTCCCC
GTGGCCACGGAGGAGCTGCTCGCGGCGAACGAGGCCAGATTCCACGCCCTCCTGCGCCAGCAGCGGCATCTCACCCAGGC
CGTCCAAGTGCTCCTCGTCCTCCGGGCGGCCGCCTACACCAGGAGCCGCTCGCACCTCGTCCCCGGCGTGCTCCTCGCGG
CCGCGTCGGCGGCGGTGGCGCCCGTGTTCAGGACCTTCGTCAGGTTCTCCGTCTTGGTGCTGGGTTTCCTCTTCGCTTCT
GGGCGTGGTCGTGGAGGGTAATGTGGCTCCAGAAGCGTACCTCACTTCGTACAATCGATGCCCGTTAATTCCACTTCCCT
TGTCATGTTGTTTGCTCTGTTGGTGATACAGATCTGAGACATGGTAATTGCTGAATGCTGACACACACCATTCGAGGTTT
TTGGGGGTTGGGAATTTTCTTTTGTTTGGTGGTGTTGGGGGTGGGTCGCCCATCATAAAGTTGCCGAAATTTCGATTATG
GACAAAAAAGCATAAATTTCCGTTTAAATT---TAAGTGGAATTCAAGCAATGTCTTGCGGGGATTTGAATCGTGTTCAA
TTTAACTTGAACTCACGTGTTACTTATTTTGTTTTAGCCGAAATGTCTATATTTTGGTACCCATGATAGAACCAATCCCA
AACATTTCATTAAATATTAATATTTCACATCCCTTATATTCTGGGTCGTCTTCCATAATTTACATCAAGTTGATTG----
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>chr3B_810
CGA-----------------------------------------------------------------------------
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-------------------------TGCCATTGTTTGTCTAGCCAGTCCAC-AACTTCAAGCGCAAGTTCTGATCCAGCC
CCGGGC--------------------------------------------------------------------------
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------------------------------------------------------------------AGGCAGGCAACGTT
CTGATTTATGAATGTCGCGACACCTGCTGGGCCCCACTATGATCCCCATCCCCACCCACTTTCCCCTTTCCAGTCAAAAA
CCCTC----GCCACGCACCAAGCAAGTCCCAACCCAGCCCAAATGGAGAACCCGCTGCTGGAGATGGTGATCAGAGGCCT
GCCTCTCCTCGTCGACGACGTCGACCTCGCCCAGAGCCTCCTCGACCTCGTCCATGCCGACATCGACCGGACCGAACTCC
GCCTCGGCGAGGTGGCGGCCCAGCTCGAGCAAATCCAGGGCCTGGCCTTGGAGTTGGAGGAAATGCGCCTAGCCCTCCCC
GTGGCAACGGAGGAGCTGCTCACGGCGAACGAGGCCAGCTTCCACGCCCTCCTGCGGCAGCAACGGCATCTCACCCAGGC
CGTCCAAGTGCTCCTCGTTCTCCGGGCGGCCGCCTACACCAGGAGCCGCTCGCACCTCGTCCCCGGCGTGCTCCTCGCGG
CCGCGTCGGCGGCGGTGGCGCCCGGGTTCAGGACCTTCGTCAGGTTCTCCGTCTTGGTGCTGGGTTTCCTCTTCGCTTCT
GGTCGTGATCGTGGAGGGTAATGTGGCTTCAGAAGCGTACCTCACTTCGTATAATCGATGCCCGTTAATTCCACTTTCCT
TGTCATGTTGTTTGCTCTGTTGGTGATACAGATCTGAGACATGGTAATTGCTGAATGCTGACACATACCATTTGTGGTTT
TGGGGGGTTGAGATTTTTCTTTTGTGTGGTGGTGTTAGGGGTGGGTCGGCCACCATAAAGTTGC-GAAATTTCTAC-TTA
GACAAAAAGGCCCAAATTTCTGTTTAAATTATTTAAGTGGAATTCGGGCAGTATCTGCCAAATATTGGACTCGTGTTCTA
TTTAACTGCAATTCAAGTGTTACTGATTTTGTTTTAGCTGATATGTGAATATTTTGGTACCCATTATAAGACCATTTCCA
AAAATTTAAGTAAACATTA-TATTTCGCATCCCTTACATTCTGGGCTCGTCTT---------------------------
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>chr3B_812
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------------------------GTGCCATTGTTTGTCTAGGCCGTCCAC-AACTTCAAGCGCAAGTTCTGATCCAGCC
CCGGGC--------------------------------------------------------------------------
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------------------------------------------------------------------AGGCAGGCAACGTT
CTGATTTCTGAATGTCGCGACACCTCCTGGGCCCCACTACGATCCCCAT-----CCCACTTTCCCCTTTCCAGTCAAAAA
CCCTC----GTCACGCCCCAAGCAAGTCCCAACCCAGCCCGAATGGAGAACCCGCTGCTGGAGATGGTGATCAGAGGCCT
GCCTCTCCTCGTCGACGACGTCGACCTCGCCGAGAGCCTCCTCGACCTCGTCCATGCCGAGATCGACCGGACCGAACTCC
GCCTCGGCGAGGTGGCGACCCAGCTCGAGCAAATCCAGGGCCTGGCCTTGGAGTTGGAGGGAATGCGCCTGGCCCTCCCC
GTGGCAACGGAGGAGCTTCTCGCGGCGAACGAGGCCAGCTTCCACGCCCTCCTGCGGCAGCAGCGGCATCTCACCCAGGC
CGTCCAAGTGCTCCTCGTTCTCCGGGCGGCCGCCTACACCAGGAGCCGCTCGCACCTTGTCCCCGGCGTGCTCCTCGCGG
CCGCATCGGCGGCGGTGGCGCCCGGGTTCAGGACCTTCGTCAGGTTCTCCGTCTTGGTGCTGGGTTTCCTCTTCGCTTCT
GGTCGTGCTCGTGGAGGGTGATGTGGCTTCAGAAGCGTAGCTCACTTCGTACAATCGGTGCCCGTTAATTCCACTTTCCT
TGTCATGTTGTTTGCTCTGTTGGTGATACAGATCTGAGACATGGTAATTGCTGAATGCTGACACATACCCTTCGTGGTTT
TTGGGGGTTGAGATTTTTCTTTTGTGTGGTGGTGTTGGGGATGGG---CCCACCATAAAGTTGC-GAAATTTCTACATTA
GACAAGAAGACTCAGATTTCTGTTTAAATT---CAAGTGGAATTCCAGCAATATCTGGCAAGT-TTTGAATCGTGTTCAA
TATAACTTGAATTCAAGTGTTACTGATTTAGTTTTAGCTAAATTGTGAATGTTTTGCTTCCCATTATAAGACCAATTCCA
ATCATTTCAATAAACATTA-TA----------------------------------------------------------
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>chrUn_813
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-------------------------TGCCATTGTTTGTCTAGCCAGTCCAC-AACTTCAAGCGCAAGTTCTGATCCAGCC
CCGGGC--------------------------------------------------------------------------
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------------------------------------------------------------------AGGCAGGCAACGTT
CTGATTTATGAATGTCGCGACACCTGCTGGGCCCCACTATGATCCCCATCCCCACCCACTTTCCCCTTTCCAGTCAAAAA
CCCTC----GCCACGCACCAAGCAAGTCCCAACCCAGCCCAAATGGAGAACCCGCTGCTGGAGATGGTGATCAGAGGCCT
GCCTCTCCTCGTCGACGACGTCGACCTCGCCCAGAGCCTCCTCGACCTCGTCCATGCCGACATCGACCGGACCGAACTCC
GCCTCGGCGAGGTGGCGGCCCAGCTCGAGCAAATCCAGGGCCTGGCCTTGGAGTTGGAGGAAATGCGCCTAGCCCTCCCC
GTGGCAACGGAGGAGCTGCTCACGGCGAACGAGGCCAGCTTCCACGCCCTCCTGCGGCAGCAACGGCATCTCACCCAGGC
CGTCCAAGTGCTCCTCGTTCTCCGGGCGGCCGCCTACACCAGGAGCCGCTCGCACCT-----------------------
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>SNPs
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSS------S-S-------------S---S---SS--------S--SS---S--------
------SSSS-------------------S----------------------------------S----------S--S-
------S-----------------------S--------------SS-SSSSS-SSSS----------------------
---------------------------------------------------------------------------S----
--S-------------------------S--------S------------S-----------------------S---S-
-----------------SSSSSS----------------------------S----------------------------
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--------------------------------------------------------------------S-----------
---------S------------------S---------------------------------------------------
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-------------------------S------------------------------------------------------
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--------------------------------------S-----------------------------------------
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-----------S--------------------------------------------------------------------
-------------------S-S-----------------S------------------S---------------------
----------------------SS-------------------------------------S------------------
----------------------------------------------------------------------------SSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
>forward_133
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---------------------------------CGAGGTCAGATGGTCCATCG---------------------------
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>reverse_2237
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----------------------------------------------------------------------------GGAC
CCGGATTTGGTGAACA----------------------------------------------------------------
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