>input_sequence_83665
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------------------------------------------------ATGGCGGCGGTGGATCTGTCGAAGCTGCTCAA
GGAGAAGCGGTTCTGGGCAGCCTCCTTCCTCATCGCGTGGGCGGCGGGGCTCCAGGTTCC---ACCTCATCTCCTTCCTT
CCTCCCCTCCTCTCTGCTCCAGAAATCAATCAAGACGGGATCTTTAACCGCGGCGGGACG---------ACTGTTTGCAG
GGGCACATGATGTGGTTGAAGCGGCAGGACGCCTTCAAGGACAAATTCGGCGACCCCGAAGGCGAAGCCCCCAACAAGGT
CACGGAGCAGCCGGCCGACGACAGCACCAGCCTC-----GCAGGC---------GAGCTCACCGCCGACGCCGAGATCAG
ATAG----------------------------------------------------------------------------
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>chr3B_1_TraesCS3B01G611400
ATGCTATA-TTTTTGTAAACAAATTCACAAAGTTTATTCAAACTCAATTGCCGCCAAGATTGGAGATTCCACCGAAGTGA
GAGGCTATCTAGTCAACTACACATTCTACACTGCAACTCATACAGGAACATTTAGCCGGTTGGCGTTCAATGAATAGGAA
CATGTTGCGTCTATAAGCAGTTGATGCTCGAGGAACGGGATCAC------------------------------------
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------------------------------------------------------------------ATTTCGGCCATAGC
ATGGTACCCCCACCCCAGTCGGTTGGCGCATGATTCGAGGACGTCGTGACTTTGGGCCGGGCCATGTAATGGCGGGGTGC
CCTGTGC------------TT-TTTTGTTCCTGTTTGTGTTTTTTTCTTCATTAAAAAATATTCAGCATTTTAAATGAAA
TTGAATTCCAAACTCTTCAAGAATTAAAAAAATGTTCGTGATATTGAAA-------------------------------
------------------------------------------------ATGTTCCTGAATTAAAAAAAATATGTTTGTGG
GTTTCAAAGAAATGTTTGTGAATTAAAAAAACAATTTTGTTATTTTGAAAAATGTTCACGGTTTCAGAAAATGTATGTGG
ATTCGAAAAAATTTCATGGTTTGAAAATTTCTGATGATTTAAAAAAAAGATACTTAATTCAAAGAAATGTTCATGACTTC
AAAAAGTGTTTGCAAATTTGTAAGAAATGTTCATGATTGCAAATTTTGAATTGGATGAACAATTTATAAATTAGATAAAT
CATTTTTAAATTCGATGAAAACTGATGGACATTTTTTGAATTTTGATGATCGTTTGTATTTTTTTGAACAAATTATGAAT
TCTATG---ATATTT----------------------------------------AAAAGTAAAAAAAAGAGAAAAAAAT
TAAAAA--CCGAAACCGGAAGTGGATCTATGCTACTTGGGCTGGCCGAGGGTGGTTGCTCGTTTGGTCGACAGTTACCAC
CTACGCGGCGAATAGGAGTGGTTGTGACTGGAGGTGGGTTTTCTCAGCAGAAAAAAAAAGTAACTGAAGGTGGGAGGCCG
GAG--------GGGAAAGAAAGAGAGAGCGAGAGACAGAAGGGCGACCATGGCGGCGGTGGATCTGTCGAAGCTGCTCAA
GGAGAAGCGGTTCTGGGCAGCCTCCTTCCTCATCGCGTGGGCGGCGGGGCTCCAGGTTCC---ACCTCATCTCCTTCCTT
CCTCCCCTCCTCTCTGCTCCAGAAATCAATCAAGACGGGATCTTTAACCGCGGCGGGACG---------ACTGTTTGCAG
GGGCACATGATGTGGTTGAAGCGGCAGGACGCCTTCAAGGACAAATTCGGCGACCCCGAAGGCGAAGCCCCCAACAAGGT
CACGGAGCAGCCGGCCGACGACAGCACCAGCCTC-----GCAGGC---------GAGCTCACCGCCGACGCCGAGATCAG
ATAGGTAGCTGGGTACATGGATGAGTTACATGAGTACGAGATCCCTCTTTTATTTTGCCCTGTTTACCTCGACCG-----
----------ATCGATCTATCTCTGTGTAGTTAGTACTAGTTCTTGCAGTGCAAGCTTGCTCACATAAATAATGTTGGGA
GTTGTTGTAATACCTGCTGTCTCTCTGAAGGTAGGAAATTGTCACTGTTCATCACGGCTAATTGGGGCATCTCTTAATTT
TGTGAACATCAGATTGTTATAATCCCAAAGCTGCTCTGCTTTAGCCTCCTCTCCCGCCTCATTGAATGTTGGATTTGCAG
TTTCTGTTTGGTTCTCCTGTCTGAACTACCAAAACAGATACTTGATGTTTACAATTCCATACGAAATCTGGGAGTGTTTG
TTTTACTAG------TCACGAGTAGCAATCTGTGACCAGATTAACCATCCTAAA---GCTTTGCTTGGGCTTACTTCACC
TTAGCCAGCAGCTTCTC-----------ACTCACTCACTCTCT-------------------------------------
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------------------------------------------------------------ACTGCAGTTTCTGACTGGCT
TTTCTTATCTCAGATCCCAAAACAGAGTAACAGACCGACCATTATAAATCTGGGAGTGCTTTCTAGTG------------
-----ATGTGTAAGAACCCGCTATCTCAGATCACCGTTCTATTTTGCCCAGTTTTCCTACACCGATCGATCGCC-GGGGG
CGTAAGTAGCACTGCCAGTGCAAGCTTGCTCAGATAGATAATGTTTGTTTGTTTGTTAGACTGCGGCTGTTCATCATGAC
TAATTACGGCTTCTCCTATCCTGTGAACATTGAATTATCATCATCCAAAAGCTGCTTTCCTTGGGCTTAGTACATCTCAC
TCAGAGCAGTAGCTTCTCAAGCCTGTCCCACTCACTGAACGGATTGCAGTTTCTGTTTGGTTTCCTTATCTGAATTCTGA
GCTGCAATACCAAAACAGACCATCTTCTGCTCAGGATTCCAGAAAACAATCCGGGGTACTGTGAGTTATGCCTGCTGGTG
GTAGGGGATTGCCCCGATGTTCATGGCGGCTAAT
>chr3D_1
ATGCTACATTTTTTGTAAACAAATTCAAAAAGTTTACTGAAACTCAATTGCCGCCAAGATTGGATATTCCACCGAAGTGA
GAGGCTATCTAGTCAACCACACATTCTACACTGCAACTCATACAGGAACAATTAGCCGGTTGGCGCTCAATGAATAGGAA
CACATTGCGTCTGCAAGTAGTTGACGCTCGAGCAATAGGATCAC------------------------------------
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------------------------------------------------------------------ATTTCGGCCATAGC
GTGGTACCCCCACCCCAGTCGGTTGGCGCATGATTCGAGGACGTCGTGAGTTTAGGCCGGCCCATGTAATGGTGGGGTGC
CCTGTGCTTTTTTGTTTCGTT-TTTTGTTCCTGTTTGTGTCTTTTTCTTCGTTAAAAA-TGTTCAACATTTCAAATGAAA
TTGAATTCAAAACTCTTCAAGAATTAAAAAAATGATCGTGATATTGAAAAAAATGTTCTTAAATTTGAAAGTTGTTCGTG
AA-TTAAAAAATGTTCGCGCATTTGGAAAATGTCTGTGATTCCAAAAAATGTTCCCGAATTAAAAAA--TATGTTCGTGT
GTTTCAAAGAAATGTTTGTGAATTCAAAAAAATG-TTTGTTATTTTGAAAAATGTTCACGATTTCAGAAAATGTATGTGG
ATTCGAAAAATGTTCATGGTTTGAAAATTGCTGATGATTTCAAAAAAA---ACTTAATTTAGAGAAATGTTCATGACTTC
AAAAAGTGTTTGCAAATTTGTAAGAAATGTTCCTGATTGCAAGTTTTGAATTGGATGAACAATTTACGAATTAGATAAAC
AATTTTTGAATTTGATGAAAATTGAAGAACATTTTCTGAATTTTGATGATCATGT---TTATTTTAAAAAAAATATGAAT
TCCGTATTAATTTTTTGAATTCGATAACAAAAAATCTTTAAAAACTTGAACTAAAAAAGGAAAAAAAATAAGAGAAGAAA
GAAAAAGGCCGAAACCGGAAGTGGATCTACGCTA-TTGGGCCGGCCGAAAACACGTAGCGAGCGGAATAGAAGGTGGGTT
CTCTCTACCTTCAAAAAAAAA-----A---AAGGTGGGTTCTCTCA----AGAAAAAAAGTAACTGGAGGTGGGAGGCCG
GAGACGGAGAGGGGAAAGAGAGCGA----------CAGAAGGGCGACCATGGCGGCGGTGGATCTGTCGAAGCTGGTCAA
GGAGAAGCGGTTCTGGGCAGCCTCCTTCCTCATCGCGTGGGCGGCCGCGCTGCAGGTTCC---ATCTCATCTCCTTCCTT
GCTCCCCTCCCCTCTGCTCCAGAAATCAGTCAAGACGGGATCTTTAACGGCGGCGGGACGGGAAATGGCACTGTTTGCAG
GGGCACATGATGTGGTTGAAGCGGCAGGACGCCTTCAAGGACAAGTTCGGCGACCCCGAAG------CCCCCAACAAGGT
CACAGAGCAGGG-----------GCACCAGCAGCCGCCGGCCGGCGAGCAGGGGGAGCTCACCGCCGACGCCGAGATCAG
ATAGGTATCTGGGTAGATGG---------ATGAGTAGGAGATCCCTCTTTTATTTTGCCCTTTTTACCTTGACCGGTCGA
TCACCAGGGGCGCG-TCTATCTCTGTGTAATTAGTACTAGTTCTTGCAGTGCAAGCTTGCTCACATAAATAATGTTGGGA
GTTGTTATAATACCTGCTGTCTCTCTGAAGGTAGGAAATTGCTGCTGTTCATCACGGCTAATTAGAGCATCTCTTAATCT
TGTGAACATCAAATTATCATCATCCCAAAGCTGCTCTGCTTTAGC---------CTCCTCATTGAATGCTGG-ATTGCAG
TTTCTGTTTGGTTTTCCTGTCTGAAG---------------------------------TACGAAATCTGGGAGTGTTTG
TTTTACTACTCGTAATTACAAGTAGCAATCTGTGACCAGATTAACCATCCCAAACCCGCTTTTCTTGGGCTTTCTTCATC
TTAGCCAGCAGCTTCTCAGTCCTGCCTCACTCACTCACTCTCC-------------------------------------
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------------------------------------------------------------ACTGCACTTTCTGATTGGCT
TTTCTTATCTCAGATCCCAAAACAGAGTAACAGACCGGCCATTATAAATCTGGGAGTGTTTTCTAGTG------------
-----ATGTGTAAGAACCCGCTATCTCAGATCACCGTTCTATTTTGCCCAGTTTTCCTAGACCGATCGATCGCCAGGGGG
CGTAAGTAGCACTGCCAGCGCAAGCTTGCTCAGATAAATAATGTTTGTTTGTTTGTTAGACTGCGGCTGTTCCTCACGAC
TAATTAGGGCTTCACCTATCCCGTGAACATTGAATTATCATCATCCCAAACCCGCTTTGCTTGGGCTTAGTACATCTCAC
TC--AGCAGCAGCTTCTCAATCCTGTCCCACTCACTGAATGGATCGTAATCTCTGTTTAGTTTCCTTATCTGAATTCGGA
GGTGCA--------------------------------------------------------------------------
----------------------------------
>chr3A_1
ATGCTACA-TTTTTGTAAACAAATTCAAAAAGTTTATTCAAACTCAATTGCCGCCAATATTGGAGATTCCACTGAAGTGA
GAGGCTATCTAGTCAACCACACATTCTACACTGCAACTCATACAGGAACAATTAGCCAGTTGGCGCTCAATGAATAGGAA
CACGTTGCGTCTGTAAGCAGTTGACGCTCGAGGACCATGATCACACTAGACCATAGAGGCGCGCTTTGCTGCGCCCCGTC
CATCTTAAGGAAAGAATGATAGAAATATTTGAGAAATTAGGAGTTGTAACATATAACCAAATCCGTATGGTTGACATTGG
CAGCCTTTCGGGAATGCCAAAGAAACAAACTTGCAATTCCGCAAAGATGAACAAACCTAAAGTACTCAGTGAGAACCTCG
CATGTTTAGATAGTAAAGAATGTATTCACATACATGAGACAGTATACCACCATCGAAATGATTTTTGTGAAGAATCAAGT
TATGAAATCTATATATCCACGTGCTAAAATACGAAAAATAGCTAAATCGCACATAAAAAGATCATAGAAATACTCTGCTC
TAGGAAATATTGTAATTTTCTTCACGAAGTCGACATACCTGGTACACTAAGCAAAAAATTAACTTACAATGCTGCATGGT
AATTTGCAACACGTTTGTCGGACCAGAATATGCGCATTTAGACCAATCCGGAGCCTTGCTCTCTCAACTCCAGAGCTTCC
TATTCATAAATAAATAGATAATAATAATAATAATAATAATAATAACATTTTATAAACAATGATGCTAACCTAATTCTTGT
GTGGAATAATTATGAGACATTAGCTAGTGAAGATTAGGAAAATCCAGTACCACACAAAAACTGACAAGCGGCCTTGTAGA
TAACATAATAGCAAAACAATCCTCTTTCTTTAACAGACATTTCTGAACTTGATAGAAATAATCAGCTAGATCAGTTGTCA
TCTTATGTGAGTTCTCAAAAATCTTTAGTTTACTTGCTCTTTTTTGGTTATTATCAGGGAGGCATAAGGCATTTCCCTCT
TTGTATTGTTTGCCTCTTCCTAAAACACTGCATGAATAAAGATTTGGCCCAATGCCCTAGAAGATAAATCAATTCTGGTG
CCCCAAAACGCCCAAGAGATTAGAATTAAGAGCTCCAGGAAGGAGGAAACCTTGAGTTCACTCTAAAATGCATGATCACA
TCCTGAATTTTCCCCTGGCCTACGTTTGAATTAATGTGGGAAAACATAACAAACTGAAATTGAAATAGCGAGATGCTTTA
TTAGATGCCTGCAGAGAACTGCAATCAACACAGAAAGCAGGCATCATATATAAGGTCACCTGGTTACTTACAACATGACT
AAATTGGGAGATGCTGTTGAAAACAATGTTGCCAACGAACATGCATCGTACTTGAGTCTTAACAAAGCAGAACAGCCCTA
TCAATCCCATCTACTCCTCGCTCGTATCATCTTGCTAACTCTAGCGCACATGCGGAGGTGTGAAAGCATCCCGCCGCCGT
CTGACCGTGCGCCCCTGCGTCGCTGGCCACGGGACCGATTTCTTGCTAGGGTTCGGTTGGAGAGGGAGAGGCAGAGAAGA
AGTGGGGGCCTGACTGAATTAGCGAGGGGACGGGGCGAGCATGCCATAGGAGTTTCGTCCGCCAAAGTTGGGGATGCGCG
TAGAGTTCCCCTTCCCGGCGCAGGCGAGGCCGTCTCAGAGACGACGCTGGACGACCGAAAGTCTGCTGCAGGAACAGCAG
CGGTGCTTCTGTGTGGGCTGCTTAGCAAAGAAGAATGGGCCGTTGTCCCAAGAAAAGAAGAACGGGCTGTTCATACATAA
ACCAGAGGCCGCCTCGGTAGATTTCCGGAGCAGCGGCTCGTTTAGGAAGCCTGAGCGGATCCTGGACGTCCAACGACGCG
ATCGTACGGTGTAGAGCGTCAAATTGCTGTGGTTGCTCGTACCTAGCTCCATTATATTGTTTCTCAATTTCGGCCATAGC
ATGGTCCCCAC-CCCCAGTCGGTTGGCGCATGATTCGAGGACGTCGTGACTTTGGGCCCGGCCATGTAATGGTAGGGTGC
CCTGTGCTTTTTTGTTTCGTTTTTTTGTTCATGTTTGTGTTTTTTTCTTCGTTAAAAAATGTTCAGCATTTCAAATGATA
TTGAATTCCAAACTCTTCAAGAATTTAAAAAATATCCGTGACATTGAAAAAAATATTCTTAAATTTGAAAGTTTTTCGTG
AATTTAAAAAATGTTTGTGCATTTGGAAAATATATGTGATTCCAAAGAATGTTCCCGAATTAAAAAAA-TATGTTCGTGG
GTTTCAAAGAAATATTTGTGAATTCAAAAAAATGC-TTGTTATTTTGAAAAGTATTGACGATTTCAGAAAATGTTTGTGG
ATTCGAAAAATGTTCATGGTTTGAAAATTGCTGATGATTTCAAAAAAT---ACTTAATTCAAAGAAATGTTCATGACTTC
AAAAAGTGTTTGCAAATTTGCAAGAAATGTTCCTGATTCCAAATTTTGAATTGGATGAAGAATTTATAAATTAGATAAT-
--TTTTTTAATTCGATGAAAACTGATGAATCTGGTGATCC--------------------TTTTTTAACAAATAATGAAT
TCCATG---ATTTTTTCGATTCGATAAAAAAACTGCAC--AAAATTTAAAATAAAATGTGAAAAAAGAGAGGAAAAAAAA
---------CGAAACCGGAAGTGGATCTACGCTACTTGGGCCGGCCGAATACTAAAGGTCCCTCAATGTTACCAAAAAAA
AGGTC--CCCTCACAAAAAAA-----ACTGAAGGTAGGTTTTCTCA----AAAAAAAAAGTAACAGAAGGTGGGAGGTC-
-----------------------------------------GGCGACGATGGCGGCGGTGGATCTGTCGAAGCTGGTGAA
GGAGAAGCGCTTCTGGGCCGCCTCCTTCCTCATCGCATGGGCGGCGGCGCTCCAGGTTCCGTCACCTCATCTCCTTCCTT
GCTCCCCTCCCCTCTGCTCCAGAAATCAATCAAGACGGGATCTTTAACCGCGGCGGGACGGGAAATGGCGCTGTTTGCAG
GGGCACATGATGTGGTTGAAGCGGCAGGACGCCTTCAAGGACAAATTCGGCGACCCCGAAG------CCCCCAACAAGGT
CACCGAGCAGCCGGCCGACGACAGCACCAGACTC-----GCCGGCGAGCAGGGGGAGCTCACCGCCGACGCCGAGATCAG
ATAGGTAGCTAGGTAGATGG---------ACGAGAATCAGATCCCCCTTTTATCCTGTCCTGCTTTTCTAGACCTGAAGA
TCACCAAGGCATCTATCTCTCTGTGTGTAATTAG-----------GCAGTGCAAGTTTGCTCACATAAATAATGTTTGG-
-TTGTTAGGGTACCTGCTAACGCGG--------------------TGTTCATCGCGGCGAATTAGGCCATTTCTTAATCT
TATGAGCATCAAATTATCATCATCCCAAAGCTGCTCTGCTTTAGCTTCCTCTCCCGCCTCATTGAATGTTGG-TTTGCAG
TTTCTGTTTGCTTTTCATGTCTGAACTACCAAAACAGATGCTTGACGTGTACAATTCCATAAGAAACCTGGGAGTGTTTG
TTTTGCTAG------TTACGAGTAGCTATCTGTGACCAGATTAACCATCCCAAA---GCTTTGCTTGGGCTTACTTCACC
TTAGGCAGCAGCTTCTCAGTCCTGCCTCACTCACTCACTCGCTACTACTACTGTAGTTGTTTGCAGTGCAAGCTTTGCTC
ACATAAATAATTACTCTGGAGGTTTGTCTCCCTGGACTCTGGAGGTAGCAGACGGCTGGTGTTCATAACGGTTAATTAGG
GCGTCTCTTAATCTTGTGAGCATTGAATTACATCTTCCCAAAGCCGCTCTGCTTGCCTTACTACATGAAAGTTGCTCTGC
TTGGCCTCACTCTCAGGCCCAGCCCTGCCTGACTAACTGAATGATGGATTGCAGTTTCCGTTTGCTTTTCTTCTTATCTG
AACTGACAAAATCAAATAATTTCATCTTCTCTTTACAGTTTTGTGAGAAATCTGGGAGTGTTTGTTTAAGTCACGGCCAG
ATTAACCGGCCCAAAGCTTTGACTGAACTGCAATTCCCGATTGGCTTTTCTTATGACTGAACTGCAGTTTCCGACTGGCT
TTTCTTGTCTCAGATACCAAA-------AACAGACAAGCCATTATAAATCTGGGAGTGTTTTCTAGTGACAAGTCAGAAC
CAGCTATGAGTAAGAACCCGTTATCTCAGATCCCCCTTTTAGTTTGCCCTGTTTTCCTAGACCTTTCAATCGCCAG----
------------------TGCAAGCTTGCTTACATAGATAATGTTTGTTTG---GTTAGACTGCCGCTGTTCATCACGGC
TAATTAGGGCTTTGCCTATCCTGTGAACATTGAATTATCATCATCCCAAAGCCGCTTTTCTTGGGCTTAGTACATCTCAC
CC--AGCAGCAGCTTCTCAGTCCTGTCCCACTCAATGAATGGATTACAATTTCTGTTTGGT-------------------
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>SNPs
------S--------------------S----------------------------------------------------
-----------------S--------------------------------S--------------S--------------
--S---------S-----------S-----------S-------------------------------------------
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------------------------------------------------------------------------S-------
--------------------------------------------------S---------S----------S--------
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-------------------------------------------------------S------------S------S----
------------------------S------SSSS-------------------------S-------------------
----------SS-----------------S----------S-------SSS-----------------------------
--------------------------------S----------------------------------------------S
S------S-------------------S-------S---------------S-S-SSS-------S--------------
--S--------S----------------------------------------------S-S-------SS---------S
S----------------------------S-----------S------SSSSSSS--S--SS-S-S-SSSS--S--SS-S
--SSSSSS-SSSS-SS-SSSSSSSSS----S---------------SSSS------------------------------
-------------------S--S--SSSSSSSSSS----------------------------------------S----
-----------------------------------------------S--------------------------------
S---------S---------------------------------------------------------------------
-------------------------------------------------------------SSSSSS-------------
---S-------------------------------------S--------------------------------------
---------------S----SSSSSSSSS-------S--------------------------------S----------
-----------------------------S--------------------------------------------------
------S----------------------------------SSS-------------------S--------------S-
-----------S---S-S--S------------------------S--------------------------S-------
-------------S-------------------------S-----S--S-------------------------------
----------------S---------------------------------S-----------------------------
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-------------------------------------S--------------------S---------------------
-----------------------------------------------------------S--------------------
----------------------------------------------------------------------------S---
------S------S--------------------------------S-----S-----S---------------------
--SS-----S----------S------------------S--------S----------------------------S--
-S----SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
>forward_2825
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-----CGGCGAATAGGAGTGGTTGT-------------------------------------------------------
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>reverse_4703
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--------------------------------------------------------------GAGTTATGCCTGCTGGTG
GT--------------------------------
