>input_sequence_86200
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------------------------------------------------------------------------------AT
GTGCCACCCGGGGCTGCCGCCTCTGCCGCCGGGCTGCGCGGCCAGGCGGCGGC---CGCGGCCGGCGGGGGTCGTCGCGC
CCACGCCCACGCCTTCGCCGCAGCGACAGGCGCACCAGCACCACTACTGCGTGTGCTCGCCCACGGCGCACCGGGGCTCG
TTCCGGTGCCGCTGGCACCGCGCCAGCTACGCGTGGGGCAGCGGCCGCGGGAGGGCGGCGGCGATCGGGGCCGTGCCGTA
G-------------------------------------------------------------------------------
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>chr3B_1_TraesCS3B01G347700
CTCTGGCAATGGCCAGCCACTTCGCCGGGGCTCCCAGGTCCGGCAGTTCCTCCTCCCAAACAAAAGCATCATCCTCCTCT
TCCTGCAGATTAAGCCGTGCAAGTAACTCTTCCGGCGACTCCCTTGCCTGCCGCCCCTGCGTACTCGATTCGGCCGCCAT
CTTCTTTCTGATCTGGACGTTCTTCACAAACCCTAGCACTCTCCCTCGATAACCCTAGCGAAACCCAGGCGGGGGCAAGA
TCACAGAGGATCCCCCCTTTGTCACCCTTGAAATAGTTTATGGGCTTATGGTGCACTTCACTTCTTTGCGGAGTAAAAGG
ATAGAAACACGCTGATACGGAGTAGTAACAGACACGTAGCGCCGGTAGATGCCAAACGTATGGGCCAAACAATCCGTTGG
CGTTCAGGTATTACCATGTCGGTCGGATGGGTCCAAGAGGATAAGAAAAGGCCGCCGCAAAGAAGCCACGAGACGAGAGG
ATGGAAAGGTCG-----ATATGCTACCGGCTTTTGTCCTGACCTGACCGGGCGCGCACTCCAGTTCCCCGTCGAGCCGAA
AGAAGTGCACCGCAAGGAACCATCAATCACCGTCCCCTCCCGGCTACCGGAGTGGATCACGACTAGACATTCCATTC---
-------CATCACACACTACACTAGGCAAAACCAGGATGTCGCGCCATTGCGCTCCTCTCCACGCGATC----TCCCCGC
GCGCTCGCCACGCCTCGCGCTCCACAGTGCACT-----------CCCCGCCACGCGGCCGCGCCCCCTCCCTTTCCCCCG
CCT-CCCCGCCCACCACCTCACGAAACCAGCGGCCGCCACGG-------CAACCAGCCTAGTGGCCCGCGCGCCCACAAA
TATTCCTCGCTTTCCCCCCTCTATCTCCATTTCTCCACCGCCGGCACATCCCGGGAAACACCAGAACCCGATTCCATTCC
GTCGCCCTTTTATGCGTGTGGCCGGGTGGACAGAGCCCTCTCTGCAGCTTTAGCGGGTCGCCAGGCCTTGTCCAGAGCAT
GTGCCACCCGGGGCTGCCGCCTCTGCCGCCGGGCTGCGCGGCCAGGCGGCGGC---CGCGGCCGGCGGGGGTCGTCGCGC
CCACGCCCACGCCTTCGCCGCAGCGACAGGCGCACCAGCACCACTACTGCGTGTGCTCGCCCACGGCGCACCGGGGCTCG
TTCCGGTGCCGCTGGCACCGCGCCAGCTACGCGTGGGGCAGCGGCCGCGGGAGGGCGGCGGCGATCGGGGCCGTGCCGTA
GCCGAGGCGGCCGGTGACGCGTGCGAGGGTGGTGACA-----CCTACGCCGGGCACGTGCCGCCCGCAATGT-GTACGTG
TTCTCGGCC----CATGGCGCCATCTTGTCCGCCCCGCTGTGATAGTCAGCTCATGTGAATGTACATACTTGTCAGAAGA
AGTAGATGCAGACAAAGTAGCAATGCATGTTTAATTTCTATAAGCTGGTACATTTGTTCTGAAAATAGCATCACATGGTT
ACTCCATACATGCAGAATAGCATTGTGCAATCGTGTGTGGCCATCGAGAAATCAATCAAAATTGGGTTCATGCGTGTGGT
GACAGACTATGTACTACACTACAGCAAACAAAGAACATGTAGTATGTCAGTCCATTGTGATCAGGCCTGGACCTCCCTTC
AGCGAGCGGTGCAGAGGCCGTGATCGCTTGAAGCCGAATATGTCGGTAATCCGGCAAGTTTTGGGCGGATCAGCCTCGGC
GATCGCCTTCTTGAACTCTGCCGAATGGTTGCCGCTGAAGACCTGCACGCTTACTGTCCTCCTTTGAGGGGCGTCCACCT
TTATGTACTCATCAAAGTATTCGATGAATTCTTCTTTCTTGAGCTCTCTTAGGAGAGCAACCTGCAAACGGTTTTCGAGG
TCATATATCTTGCGGATCCAGGACACAGCCTTTTTTCCTGTGGTAAAAAGAGTGATGTGTTTTCTCGAAACAGAACTTTT
GAAAATTGCACTAGTTTTGGCCCACTTTTCCGGCTTGCTTTTTGTT---TCATGCAGTTTTCTCTCA-------------
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---TATATCACAGCGTGTATTGTTGCCCGAACAAAAGCACTTACCTCGGACTCGACCCTATCAAACTTGAGAGTTCCGGC
TTCAATCTCTCCCCAGTAGAAGCCAGATTCCTCCCACAAGTTTTTAAATTTCTCCAGTTTCGAATCAATAAGTGATTTGA
CATTTCTCTGCCATAAGCAAAACACGGCAATGTCAAAATGCTTCGTTAATGCCAAAACCTTTTGTCTTTT
>chr3D_268
TTGAGATAG-----------------------------------------------------------------------
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-------------------------------------TTATGGACTTATGACGCACTTCACTTG-TTGCGGAGCAAAAGG
ATGGAACG-CGCTGATACGGAGTAGTAACAGACACGTAGCGCCGGTAGATGCCAAACGTATGGGCCAAACAATCCGTTGG
CGTTCCGGCATTACCATGTCGGTCGGATGGGTCCAAGAGGATAAGAAAAGTGCGCCGCAAAGAAGCCACGAGACGAGAGG
ATGGAAAGATCGATATCATATGCTACCGGCTTTTGTCCTGACC-----GGGCGCGCACTCCAGTTCCCCGTCGAGCCGAA
AGAAGTGCACCGCAAGGAACCTTCAATCACCGTCACCTC-------CCGGAGTGGATCACGACTAGACATTCCATTCCGT
TCCATTCCATCACACACTACACTAGGCAAAACCAGGATGTCGCGCCACTGCGCTCCTCTCCACGCGATCGATCTCCCCGC
GCGCTCGCCACGCCTCGCGCTCCACAGTCCACTCCCCATCGCCTTCCCGCCACGCGGCCGCGCCCCCTCCCTTTCCCCCG
CCT-CC-CGCCCACCACCTCACGAAACCAGCGGCCGCCACGGGCCACGGCAACCAGCCTAGTGACCCGCGCGCCCACAAA
TATTCCTCGCTTTCCCCCCTCTATCTCCATTTCTCCACCGCCGGCGCATCCCGGAAAACACCAGAACCCGATTCCGTTCC
GTCGCCCTTTTATGCGTCTGGCCGGGTGGACAGAGCCCTCTCTGCAGCTTTAGCC-GTCGCCAGGCCTTGTCCGGAGCAT
GTGCCACCCGGGGCTGCCGCCTCTGCCGCCGGGCTGCGCGGCCAGGCGGCGGCCTTCGCGGCCGGCGGGGGTCGTCGCGC
CCGCGCCCACGCCTTCGCCGCAGCGACAGGCGCACCGGCACCACTACTGCGTGTGCTCGCCCACGGCGCACCGGGGCTCG
TTCCGGTGCCGCTGGCACCGCGCCAGCTACGCGTGGGGCAGCGGCCGCGGGAGGGCGGCGGCGATCGGGGCCGTGCCGTA
GCCGAGGCGGCCGGTGACGCGTGCGAGGATGGTGACATGACACCTACGTCGGGCACGTGCCGCGCACAATGT-GTACGTG
TTCTCGGCTTATGCATGGCGCCATCTTGTCCGCTCCGCTGTGATCGTTAGCTCATGTGAATGTACATACTTGTCAGAAGA
AGTAGATGCAGACAAAGTAGCAATGCATGTTTAATTTCTATAAGCTGGTACATTTGTTCTCAAAATAGCATCACATGGTT
ACTCCATACATGAAGAGTAGCATTGTGCAATCGTGTGTGACCATTGAGAAATCAATCAAAATTGGGTTCATGCGTGTGGT
GACAGACTATGTACTACACTACAGCAAAGAAAGAACATGTAGTATGTCAGTCCATTGTGATCAGGCCTGGACCTCCCTTC
AGCGAGCGGTGCAGAGGCCTTGATCGCTTGAAGCCGAATATGTCGGTAAGCCGGCAGGTTTTGGGCTGATCAGCTTCGGC
GATCGCCTTCTTGAACTCTGCCGAATGGTTGCCGCTGAAGACCTGCACGCTTACTGTCCTCCTTTGAGGGGCGTCCACCT
TTATGTACTCATCAAAGAATTCGATGAATTCTTCTTTCTTGAGCTCTCTTAGGAGAGCAACCTGCAAATGATTTTCAAGG
TCATATATCTTGCGGGAAA-------------------------AAAAAGGGCGATGTGTTTCCTCGAAACGGAACTTTT
GAAAAATGCCCTAGTTTTGACCCACTTTTCCGGCTTGCTTTTTGTT---TCATGTAGTTTTCTCTCA-------------
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---TATATCATAGCGTTTATTGTTGCCCGAACTAAAGCACTTACCTCGGACTCGACCCTATCAAACTTGAGAGTTCCGGC
TTCAATCTCTCCCCAGTAGAAGCCAGATTCCTCCCACAAGTTTTTAAATTTCTCCAGTTTCGAATCAATAAGCGATTTGA
CATTTCTCTGTCATAAGCAAAACACGGCAATGTCAAAATGCTTTGTTAATGCCAAAACCTTTTGTCTTT-
>chr3A_305
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----------------------------------------------------------------TTTTCGGAGTAAAAGG
ATAG-AACACGCTGATACGGAGTGGTAACAGACACGTAGCGC-GGTAGATGCCAAACGTATGGACCAAACAATCCGTTGG
CGTTCAGGCACTACCATGTCGGTCGGATGGGTCCAAGAGGATAAGAAAAGGCCGCCGCAAAGAAGCCACGAGACGAGAGG
ATGGAAAGGTCT-----ATATGCCACCGGCTTTTGTCCTGACC-----GGGCGCG------------------AGCCGAA
AGAAGTGCACCGCAAGGAACCATCAATCACCGTCCC-------CTCCCGGAGTGGATCCCGACTAGA-----CATTC---
-------CATCACACACTACACTAGGCAAAACCAGGATGTCGCGCCATTGCGCTCCTCTCCACGCGATCGATCTCCCCGC
GCGCGCGCCACGCCTCGCGCTCCACAGTCCACCCCCCATCGCCTCCCCGCCACGCGGCCCCGCCCCCTCCCTTTCCCCCG
CCTCCC-CGCCCACCACCTCACGAAACCAGCGGCCGCCACGG-------CAACCAGCCTAGTGGCCCGCGCGCCCACAAA
TATTCCTCGCTTTCCCCCCTCTATCTCCGTTTCTCCACCGCCGGCATATCCCGGAAAACACCAGAACCCGATTCCATTCC
GTCGCCCTTTTATGCGTGTGGCCGGGTGGACAGAGCCCTCCCTGCAGCCTTAGCC-GTCGCCAGGCCTTGTCCGGAGCAT
GTGCCACCCGGGGCTGCCGCCTCTGCCGCCGGGCTGCGCGGCCAGGCGGCGGC---CGCGGCCGGCGGGGGTCGTCGCGC
CCGCGCCCACGCCTTCGCCGCAGCGACAGGCGCACCGGCACCACTACTGCGTGTGCTCGCCCACGGCGCACCGGGGCTCG
TTCCGCTGCCGCTGGCATCGCGCCAGCTACGCGTGGGGCAGCGGCCGCGGGAGGGCGGCGGCGATCGGGGCCGTGCCGTA
GCCGAGGCGGCCGGTGACGCGTGCGAGGATGGTGACATGACACCTACGGCGGGCACGTGCCGCGCACAATGTTGTACGTG
TTCTCGGCTTATGCATGGCGCCTTCTTGTCCGC-----TGTGATCGTCAGCTCATGTCAATGTACATACCTGTCAGAAGA
AGTAGATGCAGACAAAGTAGCAATGCATGTTTAATTTCTATAAGCTGGTACATTTGTTCTGAAAATAGCATCACATGGTT
ACTCCATACATGAAGAACAGCATTGTGCAATCGTGTGTGACCATTGAGAAATCAATCAAAATTGGGTTCATGAGTGTGGT
GACAGACTATGTACTACACTACAGCAAACAAAGAACATGTAGTATGTCAGTCCATTGTGATCAGGCCTGGACCTCCCTTC
AGCGAGCGGTGCAGAGGCCTTGATCGCTTGAAGCCGAATATGTCGGTAATTCGGCAGGTTTTGGGCGGATCAGCCTCGGC
AATCGCCTTCTTGAACTCTGCCAAATGGTTGCCACTGAAGACCTGCACGCTTACTGTCCTCCTTTGAGGGGCGTCCACCT
TTATGTACTCGTCGAAGAATTCGATGAATTCTTCTTTCTTGAGCTCTCTTAGGAGAGCAACCTGCAAATGATTTTCGAGG
TCATATATCTTGCGGATCCTGGAAACAGCCCTTTTTCCCTTCGG-AAAAGAGTGGTGTGTTTTCTTGAAACGGAACTTTT
GAAAATTGCACTAGTTTTGGCCCCCTTTTCCGGCTTGCCTTTTGTTTTATTATGCAATTTTCTCTCATAACCCCACTGTC
TCAAAATAAGTGACTCAATTTTGTACTAACTTTGTACTAAAGTTAATACAAAGTTGAGTCACTTATTTTGGGACTGGAGG
GAGTATATCACAGCGTGTATTGTTGCCCGAACAAAAGCACTTACCTCAGACTCAACCCTATCAAACTTGAGAGTTCCGGC
TTCAATCTCTCCCCAGTAGAACCCAGATTCCTCCCACAAGTTATTAAATTTCTCCAGTTTCGAATCAATAAGTGATTTGA
CATTTCTCTGTCATAAGAAAAACACGGCAATGTCAAAATGCTTCATCAATGCCAAAACCTTTTGTCTTT-
>SNPs
S-SS-SS-SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS------S------SS-----------S----------------
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--------S-----------------------------------------------------------------------
-------------------------------------------SSSSS--------------------------------
---------------------------------------SSSS--S----------------------------------
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----------------------------S---------------------------------------------------
------S-------------------------------------------------------------------------
------------------------------------------------------S-------------------------
------------------------------------------------------SS-----------------S------
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--S---------------------------------S-------------------------------------------
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----------------------------S-------------------S--------------S-S--------------
--------S------------------------S----------S-----------------------------------
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------------S--------------------------S----S-----------------------------------
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-------------------S------------------------------------S-----------------------
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-----------------S--------------------------------------------------S-S---------
-------------------S---S------S-------SS-S-S---------------------------S--------
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----------S----------------------------------------------------------S
>forward_62
------------------------------------------GCAGTTCCTCCTCCCAAACA------------------
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>reverse_1700
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-------------------GTGATCGCTTGAAGCCGAAT-----------------------------------------
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