>input_sequence_75530
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---------------------------------------------------ATGTCCAAGTACGGCACCATCCCCA----
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--------------------------------CCTCCTCCTCCGCCGCCGCGGGGGCGCCCCACCTCGGCGGCGCCTCCC
CGCTCGACTTCATCTCCCGCGCCAAGGCCCGCGGCGCGACGGCGCTGGCCACGCGCCGGCCATGGCGCGAGCTCGCGGAC
GTGCACGCCGTCGGGCTGCCCCCGAGCCTCGGCGACGCCTACCTGCGCGTGCGCGCCAACCTCGCCCACTTCGCCATGAA
CTACGCCATCGTCGTCCTCGTCGTCGTCTTCCTCTCCCTCCTCTGGCAGCCCATCTCCCTCATCGTCTTCCTCGTCTGCA
TGGTCGGCTGGCTCGTCCTCTACTTCCTCCGCGACGAGCCCATCGTCCTCTTCGGCCGCGTCGTCGGCGACGGCGTGGTC
CTCGCCGTGCTCGCTGCTGTCACGCTCATCCTCCTGCTGCTCACCGGCGCCACCACCAACATCCTCACGTCGCTGCTCAT
CGGCTTCGTGCTCGTCGTGGTGCACGCCGCTCTGCACAAGGCGGAGGACAACGTTGACGAAGAGGTCGGCCGCTGGTACG
CGCCGGTGCCAGCGCAGTAG------------------------------------------------------------
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>chr3D_1_TraesCS3D01G106500
AACGTCTGTACGATCAAGGGTTTCAGTTTCAGGGTGAGAATGTTGTGCCTGAGCATGGAGGAGCGGCAACGTTTGAACAG
TTCACCCAATTTCATCATGACATGCGTGATTGAGAAACTCACGTGCAACTGCAAAATGATTTGGTTGAGTATATGTGGGC
TCACGTTGACAACCAATAGATGTATCTTCTTTATTCGACTTGCAAAACTATGTGAGACATTTTTATTTTTATTTGGCTTG
TAAAACTATGCTATTTTATTCGGTTCAAACTATGTTATTTGGCTATTGTTTAAATGCAAAATCAATGCAAAAGTGAGCTA
TCTGTTGAAATATGGCGGCCAGCAGGCCACACCGGTACATATGGGTCGACGCGTTGGGCACGCTGCCAACCCATATCTAA
AACAGGGCGGACGCCGGGCGAGCGGCCGACCCAAACGGATAAAAAACAAACGAAATCATCATCCGTTTGGGTCGGCCCGT
TGGAGTTGCTCTTATCAATAGAGAAGTTTTCCAAACACCGGCACCGGGAGCGATGATAACATTGTTTTCTTTGTTCCATA
CGGTGGTGAAATTCGGGGAAATCGTGAATTTACAAAGGGTGCGTTTAGGACACATCTAGATGTGCTCTGCTTATTGCACA
TCTAAGTAAGTGTATCAAGCATAAACACAAAAAAAAAGAAAAAGAAAATATCCACAAGGATCTTAATATAAAATCAATAA
CATAGGATTTAGATGTGCAATACTTATGGCACGTCTGCTTTAGCAAAACTGATTTACAAAACAGGGGCCGTCGCCGTCTA
GAAAGCCCTCGAAATTCACGTCGCCGTGTCGTGTAACGGGAGGGCATCCAGCACGGCAGCGTTCCCCACCCTCGCGTCGC
ATCCCA-AATTCGTTAATCCCATCGCCCTTGCCCGATCCCTCTCGAGTCT----CCTCCCTTCCCCCGTCCCCTTT----
--CCCCTCTCGGATCCGACCCCCCGCGGTCCGCCCCTCGCCGCCGGCGACCATGTCCAAGTACGGCACCATCCCCA----
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--------------------------------CCTCCTCCTCCGCCGCCGCGGGGGCGCCCCACCTCGGCGGCGCCTCCC
CGCTCGACTTCATCTCCCGCGCCAAGGCCCGCGGCGCGACGGCGCTGGCCACGCGCCGGCCATGGCGCGAGCTCGCGGAC
GTGCACGCCGTCGGGCTGCCCCCGAGCCTCGGCGACGCCTACCTGCGCGTGCGCGCCAACCTCGCCCACTTCGCCATGAA
CTACGCCATCGTCGTCCTCGTCGTCGTCTTCCTCTCCCTCCTCTGGCAGCCCATCTCCCTCATCGTCTTCCTCGTCTGCA
TGGTCGGCTGGCTCGTCCTCTACTTCCTCCGCGACGAGCCCATCGTCCTCTTCGGCCGCGTCGTCGGCGACGGCGTGGTC
CTCGCCGTGCTCGCTGCTGTCACGCTCATCCTCCTGCTGCTCACCGGCGCCACCACCAACATCCTCACGTCGCTGCTCAT
CGGCTTCGTGCTCGTCGTGGTGCACGCCGCTCTGCACAAGGCGGAGGACAACGTTGACGAAGAGGTCGGCCGCTGGTACG
CGCCGGTGCCAGCGCAGTAGTGTGAGATCGCTCGCCCTCCAACTCTTGGTTCGTGGTCCGTCCATATTATTGTTCAGTCC
CGTGTATGCATTTCGGTTCTTCCTACTGCTGGATGGTGTACAATTTGTCAATGTGTTCTTGCTGTGCTATTGTC------
--ACATGAATGCAAGTGATGATGCTTATCTTCCCGAAGTTTACCTGTGTAGTTGATAGCTGCGAGCAGCTGAGTGTGCAA
TTGGGTCTCAAACAGTGACGGTCATGTGAAGTGTTCAGTTTGTTTGTCATATAAATTACCTGGTCAGGCAGATTCCTTTT
TTGTTCCGTGGGTAATTGAGATGTTGCCTTTACAAAGTGAGATTGAGACGTTTTGCAGTTCCAGAAGTCCCTTAAACTGC
ATTGTACCTGGCTTTTCACTAACTTTTAGAAAGGAAGAAAAGAGATATCTAAATGGTGGTTGGTCTAAAATATCTCTAAA
TGTATCTGCTAGCTCTGCCAGAATTTCATAAATGGTTCAGTGAATTTAGTTTGCTTGACAGAGTTTGCGGTATGGCAAGC
AGTTGTCACTATCAGGCTGTCCAATCTGATAAAAATAGTTTTAGCAATCATATCATCTCTTTACACCCTGTAACCATACT
GTAGTTCCCTGTTTATAGTTGCGGATCGTGTATCTATGTGCTTGTTTTTCATGGAGGGCAGAATCATTGTAAGTGCCAGC
CAGAAGAAGACGGATATATGCAATTTGGAAATAATCCAAGAGACAACCCTGGCCTGACAGGCCCTACACTAAGAGTCTTC
TGGAAGTAGTGGGAGGCAATTCCTTGCCCACTGCTCTTCCCACCAGGGAGGTACAGCTAACTAGCAATTGAATTGAGTTA
GCTTAGCTGTTTGTTGGGTGCAGAGTATTTTAAACTTT----------GAAATCTAAGTTTTAGAGCTCAATCATCATGC
TGTCAAAATCATTTCGGTGGTAGGTACTTACACCACACTTCTGAAGGGTCTGTATTTTGCAGTTTCTTTTTTGAGTTG
>chr3A_492
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-----------TTATCGATAGAGAAGTTTTCCGAACACCGGCACCGGTAGCGATGATAACATTGTTTTCTTTGTTCCATA
CGGTGGTGAAATTCGGGGAAATCGCGAATTTACAAA--------------------------------------------
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------------------------------------------------------------ACAGGGGCCGTCGCCATCTA
GAATGCCCTTGAAACTCACGTCGCCGTGTCGTGTAACAGGAACCCATCCAGCACGGCTGCGTTCCCCACCCTCGCGTCGC
ATCCCCCAATTCGTTAATCCCATCGCCCTTGCCCGATCCCTCTCGAGTCTCCTCCCTCGCCTCCCCCGTCCCCTTCCCCT
CCCCCCTCTCGGATCCGCCCCCCCGCGGCCCGCCCCTCGCCGCCGGCGACCATGTCCAAGTACGGCACCATCCCCACNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNCACCTCCTCCTCCTCCGCCGCCGCGGGGGCGCCCCACCTCGGCGGCGCCTCCC
CGCTCGACTTCATCTCCCGCGCCAAGGCCCGCGGCGCGACGGCGCTGGCCACGCGCCGGCCGTGGCGCGAGCTCGCGGAC
GTGCACGCCATCGGGCTGCCCCCGAGCCTCGGCGACGCCTACCTGCGCGTGCGCGCCAACCTCGCCCACTTCGCCATGAA
CTACGCCATCGTCGTCCTCGTCGTCGTCTTCCTCTCCCTCCTCTGGCAGCCCATCTCCCTCATCGTCTTCCTCGTCTGCA
TGGTCGGCTGGCTCGTCCTCTACTTCCTCCACGACGAGCCCATCGTCCTCTTCGGCCGCGTCGTCGGCGACGGCGTGGTC
CTCGCCGTGCTCGCTGCTGTCACGCTCATCCTCCTGCTGCTCACCGGCGCCACCACCAACATCCTCACGTCGCTGCTCAT
CGGCTTCGTGCTCGTCGTGGTGCACGCCGCCCTGCACAAGGCGGAGGACAACGTTGACGAAGAGGTCGGCCGCTGGTACG
CGCCTGTGCCAGCGCAGTAGTGTGAGATCGCTCGCCCTCCAACTCTTGGTTCGTGGTCCGTCCATATTATTGTTCAGTCC
CGCGTATGCATTTCGGTTCCTCCTACTGCTGGATGGTGTACAATTTGTCAATGTGTTCTTGCTGTGCTATTGTCGTTAAT
GAACATGAATGCAAGTGATGATGCTTATCTTCCCGAATTTTACCTGTGTAGTTGATAGCTGTGAGCAGCTGAGTGTGCAA
TTGGGTCTCAAACAGTCACGGTCATGATAAGTGTTCAGTTTGTTTGTCATATAAATTACCTGGTCAGGCAGATTCCCTTT
TGGTTCCATGGGTAATTGAGATGTCGCCTTTACAAAGTGAGATTGAGACGTCTTGCAGTTCCAGAAGTCCCTTAAACTGC
ATTGTACCTGACTTTTCACTAACTTCTAAAAAGGAAGAAAAGAGATATCTAAATGGTAGTTGGTCTAAAATATCTCTAAA
TGTATCTGCTAGCTCTGCCAGAATTTCATAAATGGTTCAGTGAATGTAGTTTGATTGACAGAGTTTGGGGTATGGCAAGC
AGTTGTCACTATCAGGCTGTCCAATCTGATAAAAATAGTTTTAGCAATCATATCATCTCTTTACACCCTGTAACCATAGT
GTAGTTCCCTGTTTATAGTTGCGGATCGTGTATCTATGTGCTTGTTTTTCATGGAGGGCAGAATCATTGCAAGTGCCAGC
CAGAAGAAGACGGATATATGCAATTTGGAAATAATCCGAGAGACAATCCTGGCCTGACAGGCCCTACACTAAGAGTCTTC
TGGAAGTAGTGGGAGGCAATTCCTTGCCCACTCCTCTTCCCACCAGGGAGGTACAGCTAACTAGCAATTGAATTGAGTTA
GCTTAGCTGTTTGTTGGGTGCAGAGTATTTAAAACTTTGAAATCTGAAGAAATCTAAGTTTTAGAGCTCAATCATCATGC
TGTAAAAATCATTTCGGTGGTAGGTACTTACACCACACTTTTGAGGGGTCTGTATTTTGCAGTTTCTTTCTTGAGTTG
>chr3B_495
TCAAAAAAGAAA--------------------------------------------------------------------
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---------------------------TTTCCAAACACCGGCACCGGTAGCGATGATAACATTGTTTTCTTTGTTCCATA
CGGTGGTGAAATTCGGGGAAATCGCGAATTTACAAA--------------------------------------------
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------------------------------------------------------------ACAGGGGCTGTCGCCGTCTA
GAATGCCCTCGAAATTCACGTCGCCGTGTCGTGTAACAGGAACCAATCCAGCACGGCAGCGTTCCCCACCCTCGCGTCGC
AT--CCCAATTCGTTAATCCCATCGCCCTTGCCCGATCCCTCTCGAGTCTCCTCCCTCGCCTCCCCCGTCCCCTTCCCCT
TCCCCCTCTCGGATCCGACCCCCCGCGGCCCGCCCCTCGCCGCCGGCGACCATGTCCAAGTACGGCACCATCCCCAC---
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---------------------------------CTCCTCCTCCGCCGCCGCGGGGGCGCCTCACCTCGGCGGCGCCTCCC
CGCTCGACTTCATCTCCCGCGCCAAGGCCCGCGGCGCGACGGCGCTGGCCACCCGCCGGCCATGGCGCGAGCTCGCGGAC
GTGCACGCCGTCGGGCTGCCCCCGAGCCTCGGCGACGCCTACCTGCGCGTGCGCGCCAACCTCGCCCACTTCGCCATGAA
CTACGCCATCGTCGTCCTCGTCGTCGTCTTCCTCTCCCTCCTCTGGCAGCCCATCTCCCTCATCGTCTTCCTCGTCTGTA
TGGTCGGCTGGCTCGTCCTCTACTTCCTCCGAGACGAGCCCATCGTCCTCTTCGGCCGCGTCGTCGGCGACGGCGTGGTC
CTCGCCGTGCTCGCTGCTGTCACGCTCATCCTCCTGCTGCTCACCGGCGCCACCACCAACATCCTCACGTCGCTGCTCAT
CGGCTTCGTGCTCGTCGTGGTGCACGCCGCACTGCACAAGGCGGAGGACAACGTTGACGAAGAAGTCGGCCGCTGGTACG
CGCCGGTGCCAGCGCAGTAGTGTGAGATCGCTCGCCCTCCAACTCTTGGTTCGTGGTCCGTCCATATTATTGTTCAGTCC
CGTGTATGCATTTCGGTTCTTCCCACTGCTGGATGGTGTACAATTTGTCAATGTGTTCTTGCTGTGCTATTGTCGTTCCT
GAACATGAATGCAAAGAATGATGCTTATCTTCCCGAATTTTACCTGTGTAGTTGATTGCTGTGAGCAGCTGAGTGTGCAA
TTGGGTCTCAAACAGTCACGGTCATGCTAAGCGTTCAGTTTGTTTGTCATATAAATTACCTGGTCAGGCAGATTCCTTTT
TTGTTCCGTGGGTAATCGAGATGTTGCCTTTACAAAGTGAGATTGAGACGTCTTGCAGTTCCAGAAGTCCCTTAAACTGC
ATTGTACCTGGCTTTTCACTAACTTTTAGAAAGGAAGAAAAGAGATATCTAAATGGTGGTTGGTCTAAAATATCTCTAAA
TGTATCTGCTAGCTCTGCCAGAATTTCATAAATGGTTCAGTGAATGTAGTTTGATTGACAGAGTTTGCGGTATAC-----
-GTTGTCACTATCAGGCTGTCCAATCTGATAAAAATAGTTTTAGCAATCATATCATCTCTTTACACCCTGTAACCATAGT
GTAGTTCCCTGTTTATAGTTGCGGATCGTGTATCTATGTGCTTGTTTTTCACGGAGGGCAGAATCATTGTAAGTGCCAGC
CAGAAGAAGACGGATATATGCAATTTGGAAATAATCCGAGAGACAACCCTGGCCTGACAGGCCCTACACTAAGAGTCTTC
TGGAAGTAGTGGGAGGCAATTCCTTGCCCACTGCTCTTCCCACCAGGGAGGTACAGCTAACTAGCAATTGAATTGAGTTA
GCTTAGCTGTTTGTTGGGTGCAGAGTATTTTAAACTTTGAAATCTGAAGGAATCTTAGTTTTAGAGCTCAATCATCATGC
CGTAAAATTCATTTTGGTGGTTGGTACTTGCACCACACTTCTGAAGGGTCTGTATTTTGCAGTTTCTTTTTTGAGTTG
>SNPs
SSSSSSSSS-SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSS-----S------------------------------S--------------------------------
------------------------S-----------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS--------------------
---S---------------------------------S---SSS------------------------------------
-----S----------------------------------------------------S-S--------------S----
----------------------------S---------------------------------------------------
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------------------------------S-------------------------------------------------
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-------------------------------------S-----------------------S------------------
----------------S---------SS----------------------------------------------------
---------------------------------------------------S----------------------------
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---------------------------------------------S-------S--------------------------
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-------------------------------------S------------------------------------------
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---S--------------------------------------------------------------------------
>forward_374
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----------------------------------GTACATATGGGTCGACGCGT--------------------------
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>reverse_2758
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-------------------------------------AAGAGACAACCCTGGCCTGA-----------------------
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