>input_sequence_73221
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---------------------------------ATGGATTCCTCCGGCCCCGGCCCGTCATCCTCGGTCGTCGGCGGCGG
CAGCGCGCCGGATGTTGCGCCGAAGCCGCCTGCGCAGCTGAGCAGGTACGAGGCGCAGAAGCGTAGGGACTGGAACACGT
TCCTGCAGTACCTGCGGAACCACAAGCCGCCGCTGACGCTGGCGCGGTGCAGCGGCGCGCACGTGATCGAGTTCCTCAGG
TACCTGGACCAGTTTGGCAAGACCAAGGTGCACGTCGCCGGCTGCGCCTACTACGGCCAGCCCAGCCCGCCGGCGCCGTG
TCCGTGCCCGCTGCGCCAGGCATGGGGGTCCCTCGACGCGCTCATCGGCCGCCTGCGCGCTGCCTACGAGGAGAGCGGCG
GCGCGCCCGAGTCCAACCCCTTCGCCGCGCGGGCCGTCCGGATCTACCTGCGCGAGGTGCGCGACTCGCACGCCAAGGCG
CGCGGGATCCCGCACGAAAAGAAGAAACGGAAGCGCGCGCCGCAGGCCGCTGAGGCATCTGGTTCATCGGCTGGCGCCGG
AGCAGTCTTCGACAGGGACGTCGAGGGTAGCTTCGGCGATGGTGCTCTTGCTGCGTCCGCCGCGCAGGCTGGAGCTGGAG
ACGGTGGCAGTACTGCACCGAGCATCTCTTGA------------------------------------------------
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>chr3B_1_TraesCS3B01G381000
TACAAGGGGATGTTTCGGGGGCACGTGCAAAACATACCTACAAGGGGATGCAACTCTTCCCAGGTTTTTGTCACCGCCGA
TAATCCATCGACACTATGGAGGAGGAAGGGATACTTGCGGGGGAAAGAAGACAGATGTGTGTGGGGGAGACGAGTTGGGT
GCTTTTTCATTGGGTGAGGGGTTTGAGACGCGTCGAGGTGTGCGTTGCGTAGGGACCAGAGTCCATTGGCGTGCACGCAT
CCACCC-----------------------CGCGCTAGTGCGGGGGGGGGGGTGGAGGGGGACCAGAAGTTTCCTTTTCTA
GCGTCAGGTGGGGCAATGGGGTAAGAATCTTCTCTAGTGAAGTGTGTGCTGTGGAGCGATATACGCGTCCATATAAAAAA
TATTAATACACACTTACCGGATAGGCACGTTTATATAAAACTATAAATACAAACTTACTGGCAAGACACGTTCATATAAA
ACTATAAATACACACATACC------------------------------------------AGCTTTTACGCGTTCATA
TAAAACTATAAATACATATTTCCTGGATAGACGCGTCCGTATAAAATTATAAATACACGCTTACTGACTAGACGCGTTCA
TATAATTA---AAACTATAAATATTTGTTGGATATACGCGTCCATATATAACTATAAATACATGCTCATACGACCTACAC
GGAGCCACACACGCCTGCACCAGGTATACCTAGCAT----AGGTATGCACTTCTATACGCCCCAAATTGTTCCGGCACGG
GTCTGGGGTCACCGCGCTTGAATGGACCGCGTAGCTCCCATCATCCTCACGCGCGCCTCCGCTCCATTTCAGTAGTAACA
TTCACCT-CCCCCCTCGGCTCCCCGTCGCTCTCGCCTCTCCTCCGCGCTCCCATCCCTTTCCAACGTCCCATCTCCATCC
ACCCCAAGATCTCCTTTAACCCCTCCGGGTGCGCGTCCACTGGTCACTCACTCGTCACCGGGATCGCGCGCCGATAGAGC
TAGCTTTGCTCGCTCTCGCGGCCGGTGTTGCATATGGATTCCTCCGGCCCCGGCCCGTCATCCTCGGTCGTCGGCGGCGG
CAGCGCGCCGGATGTTGCGCCGAAGCCGCCTGCGCAGCTGAGCAGGTACGAGGCGCAGAAGCGTAGGGACTGGAACACGT
TCCTGCAGTACCTGCGGAACCACAAGCCGCCGCTGACGCTGGCGCGGTGCAGCGGCGCGCACGTGATCGAGTTCCTCAGG
TACCTGGACCAGTTTGGCAAGACCAAGGTGCACGTCGCCGGCTGCGCCTACTACGGCCAGCCCAGCCCGCCGGCGCCGTG
TCCGTGCCCGCTGCGCCAGGCATGGGGGTCCCTCGACGCGCTCATCGGCCGCCTGCGCGCTGCCTACGAGGAGAGCGGCG
GCGCGCCCGAGTCCAACCCCTTCGCCGCGCGGGCCGTCCGGATCTACCTGCGCGAGGTGCGCGACTCGCACGCCAAGGCG
CGCGGGATCCCGCACGAAAAGAAGAAACGGAAGCGCGCGCCGCAGGCCGCTGAGGCATCTGGTTCATCGGCTGGCGCCGG
AGCAGTCTTCGACAGGGACGTCGAGGGTAGCTTCGGCGATGGTGCTCTTGCTGCGTCCGCCGCGCAGGCTGGAGCTGGAG
ACGGTGGCAGTACTGCACCGAGCATCTCTTGAGTATAGTAGACTTGCAAACCTTGCCTATTAGTTTGTTTATCGTCTCCG
GCATAGGCCTAGCAAGATTTGAGCTTTCCCTTTGGTATACTTTGTTCCCTATATTATCTCTATATTTTCTGTGCCATTTT
CAGATTAATTAGATTATTAATAAGTACTGTTACAGGGCGTCGTAGTAGTAGTGTTCTAGGGGAAGTGAATTAATTGGCAC
AGCTAATTGTTCATTATCCCATACATATCCTGGTAACTTAAGAAATTGAGATTTGTGGTCATATACTCATATTATAGCTA
CTTCTTATGCTACCTCTCAGCTTGGTCATGT-ACTCCTT--ATTTCTCTTATTAGAGGTGTTTAATTTGTGCTCATTAGC
TCATTA----------------------------GCTCATACATCCATTGCAAGCTAGT---------------------
-----------------------------------------------AATCAATTCTTGCACATGATAATATTTCTAGTA
CCGTTCGAAGCGTTTCTTGCTTAATTTGCAGAAGCACTG---GATGAATGGTTTCTTGCTTATTTCTATTTTCTCCTAGC
--TACTGGAGTAGATCGCTAGGAAGAATGGAAAGAGTGCAAAGGAAAAGAGAGGGGTACAGCGCGCAGAAGCTAGGCCAG
CCTGCATTGATGGCAGTACGCGATCACTCACTGGCACACATGCGCGGAACAGTTCCCGGACGGCCTTCTTCCCCAACCGG
CCAATCTCTTGCTCTGACATACCCCCCTCCTCCATTTGACCATTCCCTACATGCCACGGGCCGCACAGCTGCAGGAACCT
TTCTCAGACAGAGACCAGAGAGAGAGCGTGTGTGT----------GAGAGAGAGATGAACAGTTTTTGCGGTTTCTAATG
GCGAGAGAGAGATGCATGAACAGTTCTTGCGGTTTGAG----------------AGAAAGAGGGAGGTTTAGGGCTAGGC
ATGCACGCGGGAGGGGTTTGTCCGGAGAGGCCTTAAATAGAAAGGAGCGGGGGAGGGGAAGGCGATAGCTGCGCTGGTCC
CCGGCCGGAGGATTGGATGGGACTGTAGGATACGGAGGCACG
>chr3D_34
---------------------------------ATACCTACAAAGGGAAGCAACTCTTCTCGGGTTTCTGTCACCGCCAA
TAATCCATCGACACTATGGAGGAGGAAGGGATGCTTGCGGGGGAAAGAAGGCAGATGTGTGTGA-GGAGACGGGCTGAGT
GCTTTTTCCTTGGGTGAGGGGTTCTAGACGCGTCGAGGCGTGCGTTTTGTAGGGACTAGAGTCCAGGGGCGTGCACGCAT
CCAGCTATGAAGCAGGTGAAAATAGCGAGCGCGCTAGTGCGCGGGGGGTGG---AGGGGGACCAGGTGTTACCTTTTCCA
GCGTGAGGTGGGGC-ATGGGGTGAGACTCTTTTTTAATTAAGTGTGTGTCGTGGAGCGATATACGCGTCCATGTAAAAC-
TATTAATATATACTTACTGGGTAGGCGCGTTCATATAAAACTATAAATACAAACTTACTTGCAAGACGCGTTTATATAAA
ACTATAAATATGCACATACC------------------------------------------AGCTTTGACGCGTTCATA
TAAAACTATAAATACATATTTGTTGGATAAGCACGTTTGTATAAATCGATAAATGCATGATTACTAGCTAGACGTGTTCA
TATAAAATTATAAATTATACGCATTTGTTGGATAAACGCGTCCATATAAAACTATAAATACATGCTCATACGACCTACAC
GGAGCCACAGACGCCTGCACCAGGTATACCTAGCAT----AGGTATGCACTTCTATACGCCCCGAATTGTTCCGGCACGG
GGCTGGGGTCACCGCGCTTGAATGGACCGCGTAGCTCCCATCATCCTCACGCGCGCCTCCGCTCCATTTCAGTAGTAACA
TTCACCT-CCTCCCTCGGCTCCCCGTCGCTCTCGCCTCTCCTCCGCGCTCCCATCCCTTTCCAACGTCCCATCTCCATCC
ACCCCAAGATCTCCTTTAACCCCTCCGGGTGCGCGTCCACTGATCACTCACTCAC-------------CGCCGGTCGAGC
TAGCTTTGCTCGCTCCCGCGGCCGCTGTTGAACATGGATTCCTCCGGCCCCGGCCCGTCATCCTCCGTCGTCGGCGGCGG
CAGCGCGCCAGACGTTGCGCCGAAGCCGCCTGCGCAGCTGAGCAGGTACGAGGCGCAGAAGCGCAGGGACTGGAACACGT
TCCTGCAGTACCTGCGGAACCACAAGCCGCCGCTGACGCTGGCGCGGTGCAGCGGCGCGCACGTGATCGAGTTCCTCAGG
TACCTGGACCAGTTTGGCAAGACCAAGGTGCACGCCGTCGGCTGCGCCTTCTACGGCCAGCCCAGCCCGCCGGGGCCGTG
CCCGTGCCCACTGCGCCAGGCGTGGGGGTCCCTCGACGCGCTCATCGGCCGCCTGCGCGCGGCCTACGAGGAGAGCGGCG
GCGCGCCGGAGTCGAACCCCTTCGCCGCGCGGGCCGTCCGGATCTACCTGCGCGAGGTGCGCGACTCGCACGCCAAGGCG
CGCGGGATCCCGCACGAAAAGAAGAAACGGAAGCGCGCGCCGCAGGCCGCTGAGGCATCTGGTTCATCGGCCGGCGCCGG
AGCAGTCTTTGACAGGGACGTCGAGGGTAGCGCCGGCGATGGTGCTCTTGCTGCGTCCGCCGCGCAGGCTGGAGCTGGAG
ACGGTGGCAGCACTGCACCGAACATCCCTTGAGTATAGTAGACTTGCAAACCTTGTCTATCAGTTCGTTTACCGTGTCCG
GCATAGGCATAACAAGATTTGAGCTTTCCATTTGGTATGCTTTGTTGCTTATATTACCTCTAAATTTTCTGTCCCATTTT
CAGATTAATTAGATTATTAATAAGTACTATTACAGGGCGTTGTAGTAGTAGTGTTCTAGGGGAAGTGAATCAATTGGCAC
AGCTGATTGTTCATCATCCCATACATACCCTGGTAATTTAAGAAAATGAGATTTGTGGTCATAT----------TAGTTA
CTTCTTATGCTACCTCTCAGCTTGATCGAGTTACTCCGTTCATTTCTCTTATTAGAGCTGTTTAATTTTTGCTAACACAT
GCATGTAGCAATAATGTGAGTGATCGGTGCACTCACTCATACATCCATTGCAAACTACTCCCTCCATTCCAAATTACTCG
TCATGGTTTTAGTTCCACGACGAGTAATTTGAAACGGAGGGAGTAGCAATCAATTCTTGCACATAATAATATTTCTAGTA
CCGTTGGAAGCGTTTCTTGCTTAATTTGCAGAAGAACTGCTTGATGAATGGT-------TTATTTCTAGTTTCTCCTAGC
TATACTGGAGTAGATCCCTAGGAAGAATGGAGAATGTGCAAAGGAAAAGAGAGGGGTACAGCGCGCAGAAGCTAGGCCAG
CCTGCATTGATGTTAGTACGCGATCACTCACTGGCACACATGCGCGGAACAGTTCCCGGACGGCCTTCTTCCCCAACCGG
CCAATCTCTTGCTCTGACATACCCCCCTCCTCCATTTGACCATTCCCTACATGCCACGGGCCGCACAGCTGCAGCAACCT
TTCTCAGACAGAGACCAGAGAGAGAGCGTGTGTGTGA----GAGAGAGAGATAGATGAACAGTTCTTGCGGTTTCTAATG
GCGAGAGAGAGATGCATGAACAGTTCTTGCGGTTTGAGGGGGGGAGGGAGGGGGAGAGAGAGAGAGATTTAGGGCTAGGC
ATGCACGCGCGAGGGGTTTGTCCGGAGAGGCCTTAAATAGAAAGGAGCGGGGAAGGGGGAGGCGATAGCTGCGCTGGTCC
CCGGCCGGAGGATTGGATGGGACTGTAGGATACGGAGGCACG
>chr3A_367
CATAT---------------------------------------------------------------------------
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------------------------------------AAAACTATAAATACAAACTTGCTGGCAAGACGCGTTTATATAAA
ACTATAAATACGCACATACCAACTTTAATGCGTTCATATAAAACTATAAATACGTACATACCAGCTTTGACGCGTTCATA
TAAAACTATAAATACATATTTGTTGGATAAGCATGTTCGTATAAACCTATAAATGCATGCTTAC-------------TCA
TATAAAATTATCAATTATATGCATTTGTTGGATAAACGCGTCCATATAAAACTATAAATACATGCTCATACGACCGACAC
CGAGCCACAGACGCCTGCACCAGGTATACCTAGCATATATAGGTATGCACTTCTATACGCCCCGAATTGTTCGGGCACGG
GGTTGGGGTCACCGCGCTTGAATGGACCGCGTAGCTCCCATCATCCTCACGCGCGCCTCCGCTCCATTTCAGTAGTAACA
TTCACCTCCCCCCCTCGGCTCCCCGTCGCTCTCGCCTCTCCTCCGCGCTCCCATCCCTTTCCAACGTCCCATCTCCATCC
ACCCCAAGATCTCCTTTAACCCCTCCGGGTGCGCGTCCACTGATCACTCACTCGTCAGCGGGATCGCGCGCCGATAGAGC
TAGCTTTGCTCGCTCTCGCGGCCGCTGCTGCATATGGATTCCTCCGGCCCCGGCCCGTCATCCTCGGTCGTCGGCGGCGG
CAGCGCGCCGGATGTTGCGCCGAAGCCGCCTGCTCAGCTGAGCAGGTATGAAGCGCAGAAGCGCAGGGACTGGAACACGT
TCCTGCAGTACCTGCGGAACCACAAGCCGCCGCTGACGCTGGCGCGGTGCAGCGGCGCGCACGTGATCGAGTTCCTCAGG
TACCTGGACCAGTTTGGCAAGACCAAGGTGCACGTCGCTGGCTGCGCCTACTACGGCCAGCCCAGCCCGCCGGCGCCGTG
TCCGTGCCCGCTGCGCCAGGCGTGGGGGTCCCTCGACGCGCTCATCGGCCGCCTGCGCGCTGCCTACGAGGAGAGCGGCG
GCGCGCCGGAGTCAAACCCCTTCGCCGCGCGCGCCGTCCGGATCTACCTGCGCGAGGTGCGCGACTCGCACGCCAAGGCG
CGCGGGATCCCGCACGAAAAGAAGAAACGGAAGCGCGCGCCGCAGGCCGCTGAGGCATCTGGTTCATCGGCTGGCGCCGG
AGCAGTCTTCGACAGGGACGTCGAGGGTAGCGCCGGCGATGGTACTCTTGCTGCGTCCGCCGCGCAGGTTGGAGCTGGAG
ACGGTGGCAGTACTGCACCGAGCATCCCTTGAGTATAGTAGACTTGCAAACCTTGTCTATTAGTTTGTTTATCGTCTCCG
GCATAGGCATAGCAAGATTTGAGCATTTCCTTTGGTATGCTTTGTTGCCTATATTACCTCTAAATTTGCTGT-CCATTTT
CAGATTAATTAGATTATTAATAAGTACTATTACAGGGCGTCGTCCTAGTAGTGTTCTAGGGGAAGTGAATTAGTTGGCAC
AGCTAATTGTTCATTATCCCATACATATCCTGGTAATTTAAAAAATTGAGATTTGTGATCATAT----------TAGTTA
CTTCTTATGCTACATCTCAGCTTGATTGAGT-ACTCCGTTCATTTCTCTTATTAGAGCTGTTTAATTTTTGCTAACA---
-CATGTAGCAATACT----GTGATCGGTGCACTCGCTCATACATCCATTGCAAACTAGT---------------------
-----------------------------------------------AATCAATTCTTGCACACAATAATATTTCTAGTA
CCGTTCGAAGCGTTTCTTGCTTAATTGGCAGAAACA---CTCGATGAATGGT-------TTATTTCTATTTTCTCCTAGC
TG--CTGGAGTAGATCGCTAGGAAGAATGGAGAATGTGCAAAGGAAAAGAGAGGGGTACAGCGCGCAGAAGCTAGGCCAG
CCTGCATTGATGGCAGTACGCGATCACTCACTGGCACACATGCGCGCAACAGTTCCCGGACGGCCTTCTTCCCCAACCGG
CCAATCTCTTGCTCTGACATGCCCTCCTCCTCCATTTGACCATTCCCTACATGCCACGGGCCGCACAGCTGCAGCAACCT
TTCTCAGACAGAGACCAGAGAGAGAGCGTGTATGTGTGTGTGAGAGAGAGATAGATGAACAGTTCTTGCGGTTTCTAATG
GCGATGGAGAGCTGCATGAACAGTTCTTGCGGTTTGAGG--------------------GAGAGAGATTTAGGGCTAGGC
ATGCACGCGCCAGGGGTTTGTCCGGAGAGGCCTTAAATAGAAAGGAGCGGGGGAGGGGGAGGCGATAGCTGCGCTGGTCC
CCGGCCGGAGGATTGGATGGGACTGTAGGATACGGAGGCACG
>SNPs
S-S-SSSSSSSSSSSSSSSSSSSSSSSSSSSSS----------S----S----------S-S-----S----------S-
--------------------------------S-----------------S------------SS-------S-S--S--
--------S--------------SS-------------S-------SS--------S--------SS-------------
---S-S-----------------------------------S------S--SSS-----------SS---S-------S-
----S---------S-------S---S----S-S--S-S---------SS----------------------S-----SS
--------S-S------S--S-----S----S-----------------------------------S----S-------
-----------S--------------------------------------------------------S-----------
---------------------SS------SS-S---S--------SS-------S--S-------SS-------S-----
-----SSS------S----SSS------------S-------------S-------------------------------
---------S-----------------------------------------------------S----------------
-S------------------------------------------------------------------------------
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------------------------------------------S--------------S----------------------
------------------------S-------------------------------------------------------
---------------------------------------------------------------S----------------
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---------------------S----------------------------------------------------------
-------S-----S------------------------------------------------------------------
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-------------------------------SS-----------------------------------------------
--------------------------S----------------------------S------------------------
--------S-----------------------------S-------S---------S-----S---------S-------
----------------------------S---------------------------------------------------
------------------------------------S---------------------------SSSSSSSSSS---S--
------------------------S--SS--------S-------------------S----------S----S-SSSSS
S---SS-----------------------------------------------S--------------------------
----------------------------------------------------------------S---------------
----------------------------------------------------SSSSSSS---------------------
-------------------------------S-SS---------------------------------------------
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--------------------------------------------------------------------------S-----
---------------------------------------------------S------------S---------------
---------------------------------------------------------S----S---S-------------
---------S------------------------------------------------S---------------------
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>forward_347
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-------GTGGGGCAATGGGGTAAGAA-----------------------------------------------------
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>reverse_1869
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----------------------------GTTACAGGGCGTCGTAGTAGT-------------------------------
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