>input_sequence_81899
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-------------ATGGCTGCCAAAAACTCCAAAGGGCAATGTAACTTGCCGCTATTTTCACATGCAACAAAGCGAGAGA
CGCACCTGCACATGCAGCTCTTAAATGCCCAGTAGGAGTACAGCAGTACAAACTGAAGTAGTAT-----------GAGTA
GCTAGGCCAAGCACATTACTAGTATTATTATTTCATGCAGCCGCGCAGGGAAAAGAAAACCCAAAAAGAAAAACATATGG
GCGATGTGCCTCGGCAAGTGTGATGTCCTAGGAGATCTAGCCACTGCTCTGAAACGATGGCAGGGCTGCTGCACACACCC
ATGCACGC-----AGAGGAGAGGAGTCGGGAAACCTCGGCTCGGTAGCGCTGACAGGAGCTATGCGGTGATCGACCGACG
GTCTGAGCGTTAA-------------------------------------------------------------------
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>chr3A_1_TraesCS3A01G240300
CCTGTCCGTCCCGAGGAGAGGTCAAACAAGATTCTCCGTGTCCTCACTTCGGTAGTAATGAATTAGTACTACCACGTACT
ATCACTGGCACCCTCCAGCACCACAGATTCTGTCAGCCCAGTGCCTGGCCAGTGGCCACGAGTAGTTGGTGAATTGGCAT
CGGCAAAACTTAACAAAATCTGGCACCGATTTTTTCAGTTAAGCCCAGACTGAGATAATAATCCACCTTTGCACGGGGGT
GTCCTGTGCATCCATGCAGAACACTTGTAGCTTTTTTTCGATAAAGAGAACACTTG------------------------
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---------------------------------TAGCTACTGCATCGATTCAGCATTTGTCCTTTTGTTCTTATTTCGAA
AACGATTCAGCA----TTTCTTCCCAAACGTTTCCGACGCAGCACCTTTGGCAGCAGTAGGTAGCCTCCCTAGTACAGTT
GGCTGTATATAAAGCCCCGAGAAACAGATTCACGGGGCAAGGGAGCTCTCCTAACTCCCGTTTCCCTTCCCTACCTCGGC
TCAAATCACCCACGCTGCCTCAGACTCGAGCTCGAGCCCGTCGGAGAAGCTCCTCCTCGCCCACCGTCGCTCCGATCGAT
CCATCGTCATGTCTCCCGTGGTCGTCGACCCATCCAGGGCCTCGGCGTGCGGTCTTTGATCCGAGCGACGCCGGCACATA
CGATCGACGGCGCGCCTCCCCTTCACCGCAAGT-----------------------------------------------
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---AAGACTGCTGCTCCTACCT---------GATCTGGTGAAGCTCAAAATGTTCTGTTCTTATTAGCCGTGAACTTGGT
GCTTCTAGTCGCCGCCGATCGCCGTCGCCAGAACACCAGATGCGCTTGCTTGCTAGTTCTTGCTGATACTCCATTTCCTT
GTTAATACTACATAGGAGTAAATTCACAGCCGTGTAGGATAGTACGTGTAGCT-------------CAAATATCAATCAC
TTGGCAATCGCATGGTGGTAAATTCACAGCCGTGAAAACACCAGCCAGATACTAGCATGAGACATGACATATTTGACTAA
GATTCCCAGCACCATGGCTGCCAAAAACTCCAAAGGGCAATGTAACTTGCCGCTATTTTCACATGCAACAAAGCGAGAGA
CGCACCTGCACATGCAGCTCTTAAATGCCCAGTAGGAGTACAGCAGTACAAACTGAAGTAGTAT-----------GAGTA
GCTAGGCCAAGCACATTACTAGTATTATTATTTCATGCAGCCGCGCAGGGAAAAGAAAACCCAAAAAGAAAAACATATGG
GCGATGTGCCTCGGCAAGTGTGATGTCCTAGGAGATCTAGCCACTGCTCTGAAACGATGGCAGGGCTGCTGCACACACCC
ATGCACGC-----AGAGGAGAGGAGTCGGGAAACCTCGGCTCGGTAGCGCTGACAGGAGCTATGCGGTGATCGACCGACG
GTCTGAGCGTTAAAACTCTTCTTTTCTCGTCGT-------------------------------------------CCTC
TTTCGATCTTCATCTCTAGGGAATGGTCGAGTTCATGTCTAGGGATTAGGGAATGGTTGAGTTCCTGGGTGTTTGTCTTG
GAGTGCTCATGCATGCTTGC-------GTAGACTCGCCTATTTCCTATGCCGCCAACGCCTAGCAGAATCTTTCCGTCTC
TTTCATGATGGCAATAGGCCAGCGCGTATATACACGGATATACTCTACCACCGGACCATTGAGAATTCTTGAGATGATAC
TTTTATAACTA---TGCCTTTTCTCAAAGGAAATATATACAAACA---GTAGTAGTATAGATGTGTGTGCGCATTGCTTT
CAGACAAACCACACCCATAAAAATAGGATACCCTGAACTGAAGGAGCTTGCCAGGAGCAGGTGCCAAATATCCAGTCCAT
TGCTGAGATCACACGACTTTCGGATGGCAACAAAGCTATGAAATTTTCGGACGGCGTAGCTTTTGCCGCTTCCTTCCTAA
TCATGCCGCCTTTTTGGCAGATTATGCCCTAATAAACGCTAAATGGCGGAGTAATAAAATAGGAGACGTGTCCCCGTTCA
TGTATGTCCTACTCCCTTCGTTCCGAAGTACTTGTCGCGGG----------------------TATGGATATATCTAGAT
GTATTTTAGTTCTAGATACATCCATTTCTGCGACGAGTAATTTA---------------------------------AAA
CGAAGGGAGTACTATACACAGGATTGGAGGGTTTGACGATGGAGATGGTTTCTTTCTTTC-AACACAGAAAGCTACTGAC
GGCTTCAAACTAGTTTGG--AAATTAAAATTTCAGATAGGGGCCCGTGGACCAAAGCTATGCCAGTTTGTGCTACTAGTA
GTATATACTAAAACTAAATCATTGGTATTAAAACAATTCAGGTTGCTTTGCTTAACCACCGATGGAATGTACATTAAACA
TGGATGAAGCGTGCAAACTTGGTCGTGCCAATAATCATCTACTACCTGAATGCAATAATTCGGGGACAAGGACACAGCAG
GGTTTTG
>chr3D_1
CCTGTCCGTCCCGAGGAGAGGTCAAACAAGATTCTCCGGCCGTGTCTTCGA----TAATGAATTACTCCT---ACGTACT
ATCACTGGCACCCTCCAGCACCACAGATTCTCTCAGTCCAGTGCCTGC-------CCACGAGTAGTTGGTGAATTGGCAT
CGGCAAAGCTTAACAAAATCTGGCACCGGTTTTTTTAGTTAAGCCCAAGCTGAGATAACAATCCACCTTTGCACGGGGG-
----------------CAGAACACTTCTACTCCCTCCGTTCCTAAATATAAGTCTTTCTAATGATTTCATTAGATGGACT
ACATACGAAGTAAAATGAATGAATCTACATTTAAAATACATCTATATACATCCGTATGTGGTTCATAATGAAACGTCTAC
AAAGACTTATACTCCCTCCGTTCCTAAATATTTGTCCTTTTAGAGGTTTCAAATGATGACTACATACGGAGCAAAATGAG
TGAATCTACACTCTAAAATATGTCTATATACATCTGTATACGGTGACCATTTGAAATCTCTAGAAAGACAAATATTTAGG
AACGGAGGGAGTATTTAGGAATGGAGGGAGTACTAGCTAGTGCATCGATTCAGCATTTGTCCTTTTGTTCCTATTTTGCA
AACGATTCAGCATTTCTTTCTTCCCAAACATTTCCGACG-AGCAGC-TTGACAGCAGCTAGTAGCCTCCCT-----AGTT
AGCTGTGTATAAAGCCACGAGAAACAGAGCCACGGGGCAAGGGAGCTCTCACCCCTCCCGTTTCCCTTCCCTACTTCGTT
TCAAATCACCAACGCCGCCTCAAACTCGAGCTCGAGCCCGTCGGAGAAGCTCCTCCTCGCCCACCGTCGCTCTGACTGAT
CCATCCTTATGTCTCCGCTGGTCGTCGACCCATCCAGGGCCTCGGCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNAAGCCTGCTGCTCCTACCTCTTTACTTTGATCGGATGAAGCTCAAACTGTTCTATTCTTATTAGCCGTGAACTTGGT
GCTTCTAGTCCCCGCCGATCGCCGTGGCTAGAAC--CAGATGCGCTTGCTTGCTAGCTTTTGCTGATACTCAATTTCCTT
CTTGTTACTACATACGCTCGGCTCAAATGCGTAGCTGAGGCGCGCTGGAGTCCTTTACCCCCACCCCAAACATCAATCAC
TTGGCAATCGCATGGTGGTAAATTCACAGCCGTGAAAACACCAGCCACATACTAGCATGAGACATGACACATTTGACTAA
GATTCCCAGCACCATGGCTGCCAAAAACTCCAAAGGGCAATGTAACTTGCTGCTATTTTCACATGCAACAAAGCGAGAGA
CGCACATGCG------GCTCTTAAATGCCCAGTAGGAGTACAGCAGTACCAACTGAAGTAGGAGTAGAGGTTGTCGAGTA
GCTAGGCCAAGCACATTACTACTAGTATTATTTCATGCAGCCGCGCAGGGAAAAGAAAACGCAAAAATAAAAACATATGG
GCGATGTGCCTCGGCAAGTGTGATATCCTCGGAGATCTAGCCACTGCTCTGAGACGATGGCAGGGTTGCTGCACACACCC
ATGCACGC-----AGAGGAGTCA-----GGAAACCTCGGCTCGGTAGCGCTGACACGAGCTATGCGGTGATCC----ACG
GTGTGAGCGTTAAGACTCTTCTTTTCTCGTCGTCAAGAGTATATAGTACATACCATATGCATGGATGCATTTCTGTCCTC
TTTCGATCTTCATCTCTAGGAAATGGTGGAGTTCATCTCTAGGCATCAGGTAATGGTTGAGTTCCCGGGTGTTTGACCTC
GAGTGCTCAT----GCTTGC-------GTAGCCTCGCCTATTTCCTATGCCGCCAACGCCTAGCAGAATCTTTCCGTCTC
TTTCATGATGGCAATAGGCCAACGCGTATATACACGGATATACTCTACCCCCAGACGATTT--AATTCTTGAGATGAAAC
TTTTATAACTAGTATGCCTTTTCCCAAAGGAAA-------------------TAGTATAGATGTGTGTGCGCATTGCTTT
CAGACAAACCACACCCATAAAAATAGGATACCCTGAACTGAAGGAGCTTGTTTGGAGTAGGTGCCAAATATCCAGTCCAT
TGCTGAGATCACAAGAC---------------------------TTTCGGACGGCGTAGCTTTTGCCGCTTCCT----AA
TCATGCCACCCTTTTGGTAGATTATGCCCTAATAAACGCTAAATAGTGGAGTAGTAAAATAGAAGACTTGTCCCCGTTCA
TGTATGTCCTGGTAGTAG--------------------------------------------------------------
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------------TATGCACAGGATTGTAGAGTTTGATGATGGAGATGGTTTCTTTCTTTC-AACACAGAAAGCTACTGAC
GGCTTCAAACT-------TAAAATTAAAAATACAGACAGGGGCCCGTGGACCAAA-------------------------
-------------------------------------------------GCTTAACCACCTATGGAATGTACATTAAACA
TGAACGAAGCGTGCAAACTTGGTCGTGCCAATAATCATCTACTACCTGAATGCAATAATTCGGGGACAAGGGCACAGCAG
GGTTTTG
>chr3B_6
-----CCGTCCCGAGGAGAGGTCAAACAAGATTCTCCGGCCGTGTCTTCGA----TAATGAATTACTCCT---ACGTACT
ATCACTGGCACCCTCCAGCACCACAGATTCTCTCAGCCCAGTGCCTGG-------CCACGAGCAGTTGGTGAATTGGCAT
CGGCAAAGCTTAACAAAATCTGGCACCGATTTTTTGAGTTAAGCCCAGACTGAGATAATAATCCACCTTTGCACGGGGGT
GTGCTGTGCATGCATGCACAACACTTG-----------------------------------------------------
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---------------------------------TAGCTAGTGCATCGATTCAGCATTTGTCCTTTTGTTCTTATTTTGAA
AACGATTCAGCA----TTTCTTCCCAAACATTTCCGACGCAGCAGC-TTGACAGCACTAGGTAGCCTCCCT-----AGTT
GGCTGTATATAAAGCCACGAGAAACAGAGCCACGAGGCAAGGGACCTCTCACCCCTCCCGTTTCCCTTCCCTACCTCGGT
TCAAATCACCCACGCCGCCTCAAACTCGAGCTCGAGCCCGTCGGAGAAGCTCCTCCTCGCCCACCGTCGCTCTGACCGAT
CCATCGTCATGTCTCCCGTGGTAGTCGACCCATCCAGGGCCTCGGCGTGGGGTCTTTGATCCGAGCGACGCCGGCACAGA
CGATCGACGGCGCGCCTCCCCTTCACCGCAGGTAAGA-------------------------------------------
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---AAGACTGCTGCTCCTACCT---------GATCTGATGAAGCTCAAACTGTTCTGTTCTTGTGAGCCGTGAACTTGGT
GCTTCTAGTCGCCGCCGATCGCCGTGGCCAGAAC--CAGATGCGCTTGCTTGCTAGTTCTTGCTGATATTCCATTTCCTT
CTTGTTACCGA---------------------AGCTGAGGCGCGCTGGAGTCCTTTAG-----CCCCAAACATCAATCAC
TTGGCAATCGCATGGTGGTAAATTCACAGCCGTGAAAACACCAGCCAGGTACTAGCATGAGACATGACACATTTGACTAA
GATTCCCAGCACCATGGCTGCCAAAAACTCCAAAGGGCGATGTAACTTGCTGCTATTTTCACATGCAACAAAGCGAGAGA
CGCACATGCG------GCTCTTAAATGCCCAGTAGGAGTACAGCAGTACTAACTGAAGTTGGAGTAGAGGTTGTCGAGTA
GCTAGGCCAAGCACATTG---GTATCGTTATTTCATGCAGCCGCGGAGGGAAAAGAAAAC----------AAACAAATGG
GCGATGTGCCTCCGCAAGTGTGATATCCTCGGAGATCTAGCCACTGATCTGAAACGATGGCAGGGCTGCTGCACACACCC
ATGCACGCAGAGGAGAGGAGTCA-----GGAAACCTCGGCTCGGTAGCGCTGACACGAGCTATGCGGTGATCC----ACG
GTGTGAGCGTTAAAACTCTTCTCTTCTCGTCGTCAAGAGTATATATACTG--CCATATGCATGGATGCATTTCTGTCCTC
TTTCGATCTTCATCGCTAGGGAATGGTCGAGTTCATCTCTAGGGATCAGGGAATGGTTGAGTTCCCGGGTGTTTGACCTC
GAGTGCTCAT----GCTTGCGTAGCCAGTAGCCTCGCCTATTTCCTATGCCGCCAACGCCTAGCAGAATCTTTCCGTCTC
TTTCATGATGGCAATAGGCCAACGCGT--ATACGCGGATATACTCTACCCCCAGACCATTAAGAATTCTTGAGATGGAAC
-TTTATAACTACTATGCCTTTTTCCAAAGGAAATATATATATACAAGAGTAGTAGTATAGATGTGTGTGCGCATTGCTTT
CAGACAAACCACACCCATAAAAATAGGATACCCTGAACTGAAGGAGCTTGTCAGGAGTAGGTGCCAAATATCCAGTCCAT
TGCTGACATCACAAGACTTTAGGACGG---CAAAGCTATGAAATTTTCGGACGGCGTACCTTTTGCCGCTTCCTTCCTAA
TCATGCCTCCTTTTTGGTAGATTATGCCCTAATAAACGCTAAATAGTGGAGTAATAAAATAGGAGACCTGTCCTCTTTCA
TGTACAG--TACTCCCTCCGTTCCTAAATGCAAGTCTTTTTAGAGATTTCACAACAAACTACATACGGATGTATATGAAC
ATATTATAGAATGTAGATTCACTCATTTTACTCCGTATGTAGTTCATAGTGAAACCTCTAAAAAGACTTACATTTAGAAA
CGGAGGGAGTATGTCCT---------------------ATGGAGATGTTTCGTTTCTTTCTAACAAAGAAAGCTACTGAC
GGCTTCAAACTACTAGTATAAAATTAAAAATTCAGACAGGGCCCCCGTGGA----------CCAGTTTGTGGTAGCG---
-----TACTAAAACTAAATCATTGGCATTAGAAGAATTGAGGTTGCTTTGCTTAACCAGGTC--GAATGTACATTAAACA
TGAACGAAGCGTGCAAACTTGGCCGTGCCAATAATCATCTACTACCTGAATGCAATAATTCGGGGACAAGGACACAGCAG
GGTTTTG
>SNPs
--------------------------------------SSSSSSSSS-SSSSSSS----------S-S--SSS-------
-------------------------------S----------------SSSSSSS-------------------------
-------S---------------------------S--------------------------------------------
--S--------S-----------------SSSSS-SSSSSSSS--SSSS-SSSS-S------------------------
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---------------------------------------S------------------------------------S---
-----------------------------S--------------S-S---S--------------------SSSSS----
----------------S-----------SS--------------------SSSS-------------------------S
---------------S------S-------------------------------------------------S--S----
-------------------------------------------------S----------------------------S-
------------------------------S-------------------------------------------------
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-------------------------------------S-----------S------------------------------
-------------------------S--------SS--------------------------------------------
S--SS---------S-SSSSSS-SS-SS--SSS-SS-SSSS-SS-SS-SSS-S-----------------S---------
---------------------------------------------------------------------S----------
--------------------------------------------------S-----------------------------
-----S---SSSSSSS---------------------------------S-----------S-S----------------
------------------------------------------------------------S------S------------
------------------------S----S--------------------------------------------------
--------------------SSSSSSSS---------------------------S----------------SSSSS---
--S-----------------------------------------------------------------------------
------------------------------------S---------S------------------S---------S-S-S
----------SSSS-----------------S------------------------------------------------
---------------------S---------------------------S--S-------S----------------S--
-----------------------S---------------S-S--------------------------------------
--------------------------------------------------S------S----------------------
-------------S------S---S--SSS--------------------------------------------------
-------S---------S--------------------------S-S--------------------S------------
-----------------S------S--S-S-SS---SSSSS------------------------S----S---S-SS-S
S----S---SSSSSSSSSSSS-SSS--S-S-SS--SS-SSSS-S------------------------------------
--S--------S---S----------S--S------S-------------------------------------------
------------S-SSSS-----------S------S------------------SSSSSS----------S--SSSSSS
SSSSS--------------------S----S--S----S---------------------S-------------------
--S-S---------------------------------------------------------------------------
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>forward_55
-----------------------------------CCGTGTCCTCACTTCGGTAG-------------------------
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>reverse_2451
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--------------------------------------------------CCAGGAGCAGGTGCCAAATA----------
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