>input_sequence_69249
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---ATGGTCGACAACTTGAAGCCCGTGGCCCTCTTCCTGCTGATGCTCAACTTGTGCATGTACCTCATCATCGCCATCAT
CGGCGGGTGGGCGGTCAACTTGGCCATCGACCGCGGCTTCATCATAGGTACTGCTCTGCTG-----TGCTGCTCGCCCGG
AACCTCAAAGCCG----TAGTAACAGAGCTAGAGCCTGCCCAGTTGCTGATTTGTGATTGCCTGCAGGGCCCGAGCTGCG
TCTCCCGGCGCATTTCCACCCGATATTCTTCCCCATCGGGAACTGGGCCACCGGCTTCTTCGTGGTGTTCGCGCTGCTCG
CCGGCGTCGTCGGCGCGGCCTCCTGCATCGTCGGCTTCACTCACGTCCGCTTCTGGAACTACAGCAGCCTGCAGCCCGCG
GCGTCGCTCGGTCTGCTCGCCTGGGCGCTCACCGTCCTAGCCATGGGGTAAGCACGCGCGTTTCTCGAATTACA------
--------------CAACTCGTTTAGTCTGACAAACTTTATGCTGAACCTTATTATT--GAT---AAATTGCTGCAGGCT
GGCTTGCCAGGAGATCAGTTTCGACCGAAGAAACGCGAAGCTGGTAAGATTCCTCCCGCTTTTGTCCTCGCCCTGTACTT
CGTCCGGTGCATATGG----TCGGTGAACTGATCAAGGCGCTCTGGGTTGGCAGGGGACCATGGAGGCGTTCACGATCGT
CCTGTCACTGACGCAGCTCGTCTACATCCTCACGATCAAGGCGGGCGGTCACGGGCCCGTCCAGGTGGAACG---ACACA
ACGCCTTGGGCCGCTGA---------------------------------------------------------------
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>chr3D_1_TraesCS3D01G174900
GGGAAAAGACTCTTGATCAACCGGTCAACACGACCGATGGACGAACCCTAGGTACGGGTGACGCGGCCCCCGGCAGCGGT
CATGGAGGCCGACCGCCCCGAGGGCGGCGCGCAGGGCGGAAGCGGCGGACGGCGGCTAGGGTTGGATCGGTTAGACTGAT
ACCATGTTAGAAGGGAGAGATGGATTTGTGAAATAGTTCGTTCGTTGTATTGCTTGAGCCTCATGGGCATATATATATAG
GAATACAAAGGCCATCTTGAAGTACAAAACAAGGCAGGATCAAATCCTACTCTATCATATACTCCCTAGTAATCCTTATA
CTCAACACTACAAAATTTAAGAAAATAATGATTCGCTTATCTTCCATATCTCCAAAAATCAAATAAACCTCCACCGCTCC
ATCATT--TGTCCATCGACATATCAGGTTTGCTTCTAGTATCCCTAAAAAAAGGTTTGCTTCTAGTAGTAGCTTATTGCC
CCGTGCGAAGGAAACGAATCAGTAGAAAGTTACATTATATTCGTCAAAAAGAAAAAGAAAAACCTAGAAAGTTACTCTAC
ATTGGCATCGACGAACTACACATATAGGACGG------------------------CGACGGGCACGTATGCGTAAGTTG
TACACATACCTAGCCGTAGGGAGAGGCACCACGGGACATGACTGCAGCAGCACGAAATCCTCCATCGCTCGGCTCCTTTC
CTTCGTCTGCAAGTCCCAC--------TCTTTAACTGACAGCCACCCGGAGTTGTTCTT-CCTCCGGGCTCCGGCGAGGG
CGGCAAGCAACGAACAAATCCCAGCTGCATGCACTGCCCCGCGCCACATGCATATGCATTCGTTCATGTATATAAACCGC
GAAGCGCCGAAGCCGTCCAGTTTCTGAAAGCGCGCGTC---AGGCATTCCATCCCAGTAT-TTAC----TGCCTCAATCG
TCAGACCATCAGCGACAGAGAGCTCCTGTAAATAACCCGAGTGGCGGTATTCTGCGGAAGTGCAGCACGTACGTCCGGCG
AAAATGGTCGACAACTTGAAGCCCGTGGCCCTCTTCCTGCTGATGCTCAACTTGTGCATGTACCTCATCATCGCCATCAT
CGGCGGGTGGGCGGTCAACTTGGCCATCGACCGCGGCTTCATCATAGGTACTGCTCTGCTG-----TGCTGCTCGCCCGG
AACCTCAAAGCCG----TAGTAACAGAGCTAGAGCCTGCCCAGTTGCTGATTTGTGATTGCCTGCAGGGCCCGAGCTGCG
TCTCCCGGCGCATTTCCACCCGATATTCTTCCCCATCGGGAACTGGGCCACCGGCTTCTTCGTGGTGTTCGCGCTGCTCG
CCGGCGTCGTCGGCGCGGCCTCCTGCATCGTCGGCTTCACTCACGTCCGCTTCTGGAACTACAGCAGCCTGCAGCCCGCG
GCGTCGCTCGGTCTGCTCGCCTGGGCGCTCACCGTCCTAGCCATGGGGTAAGCACGCGCGTTTCTCGAATTACA------
--------------CAACTCGTTTAGTCTGACAAACTTTATGCTGAACCTTATTATT--GAT---AAATTGCTGCAGGCT
GGCTTGCCAGGAGATCAGTTTCGACCGAAGAAACGCGAAGCTGGTAAGATTCCTCCCGCTTTTGTCCTCGCCCTGTACTT
CGTCCGGTGCATATGG----TCGGTGAACTGATCAAGGCGCTCTGGGTTGGCAGGGGACCATGGAGGCGTTCACGATCGT
CCTGTCACTGACGCAGCTCGTCTACATCCTCACGATCAAGGCGGGCGGTCACGGGCCCGTCCAGGTGGAACG---ACACA
ACGCCTTGGGCCGCTGATCGGGTCGGAGGATACGT-------ACGCCTGAGAAGGAGCAGAGCCGCCGGAGAAAGTTTGC
TTTGTTGTCCTTGTGCTTTTCGTTTGATGTGATGATTCTTTGAGTGGGATTGGTGAAATGCGGGTTGGCGTTGTAGTAAT
AAACTTGTGTGTTCCTCTGGCCTTTGGATTTATTGATTGATGAATTCAAGCATCTGGAAAATCTGATTTGTTAGGACGTG
CAACAAATCGTCGTCACAATACATACGTGTTTTC---TTTATAAAGAGAGCTACTACTCCGATTTCTATTAAGAGAAATC
ACAATGATGTTACAGCTACCAAAACAAGCAGAAAATAAATGAAAACAAC-GACGCATGATCTTTTTTATTTTCCGAAGAT
AACCTCAGACCTATTAACCAGCAAACAGCAATACAAGGCAACCCTGAAAAAACGAATAAATTACAAATCAGTCCCTGTGA
AGTAAGCTGTCCTAAAGGAGCAAGATGAGAAACACCCATCAACCCCCAAAGACCACAAAGGGATAAATCGACAAACTACC
GATACCTCACAAGCCAACAGACTCCAAACCCACCTTTCTCAGAGTCCACAAGCCAAAGCCCCCAA---------------
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-----------------------------------------------------------------TTTTTTCTCTGCAAA
TCATCCAACCATGATTCTGTTAGTCCTGAATCTCCATCCATGTGTTGCCTTAAAGACTTCATTGGCAATCAGCTCAACCA
TTCTTATGCCTCACTTCATTGTTCCTTGTCTTTTGGGGTTTATCTGCAAAATATTCCAATCATGTAGCCACATAATAATC
AGATTGACACAGTTATAAGGGTCAGTTACCTTGTTATTATA-AAAAATGGTACTATTTCCCAATTTCCATATAGTCCAAA
AAATAGCAGATACACCAACCATAACCAGTTTTTTTTTCAATTTATTAAACCTCAGTATCCAAAGATTAAACACATCATGA
ACATTGCCACATATATCATGTAAATTAGCACATTTCATAATTAAAGCAATTTTGAAACAAAACACTTAA
>chr3B_327
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------ACTACAAAATCTAAGAAAACAGTGATCCGCTAATCTTTCATGTCGCCAAAAATCAAATAAACCTCCGCTGCTCC
ATCATTAGTGTGCATCGACATATCAGGTTTGCTTCTAGTAGTAGTTA---------------------------ATTGCT
CCGTGCGAAGGAAGCAAATCACTAGAAAGTTATATA--ATTCGTCAATAAAAACAAGA---------AAAGT-----TAC
ATTGGCATCGACGAACTACACACATATTATAATTATAATATATAAAGATAAAGAGCCGATGGGCACGTATGCGTAAGTTG
TACACATACCTAACCGTAGGGAGAGGCACCAACGA---------CAGCAGCACGAAATCCTTGGTCGCTCGGCTCCTTTC
CTTTGTCCGCAAGTCCCAG--------TCTTT-----ACAGCCACCCGGAGTTGTC--TCCCTCCGGGCTCCGGCGAGGT
CGGCAAGCAACGAACAAATCCGAGCTGCATGCACTGCCCCGCGCCTCACGCAC------TCATTCATGTATATAAATAAA
CCGCA----AAGCCGTCCAGTTTCTGAAAGCGCGCGTCGTCAGGCATTCCATTCCAGTATTTTAC----TGCCTCAATCG
TCAGACCATCAGCGACAGAGAGCTCGTGTAAATAA-CCGAGTGGCGGTATTCTGCGGAAGTGCAGTACGTACGTCGGGCG
AAAATGGCCGACAACTTGAAGCCCGTGGCCCTCTTCCTGCTGATGCTCAACTTGTGCATGTACCTCATCCTCGCCATCAT
CGGCGGGTGGGCGGTCAACTTGGCCATCGACCGCGGCTTCATCATAGGTACTGCTCTGCTCTGCTCTGCTGCTCGCCCGA
AACCTCAAAGCCA----TAGTAACAGAGCTAGAGCCTGCCCGGTTGTTGATTTGTGATTGCCTGCAGGCCGCGAGCTGCG
TCTCCCGGCGCATTTCCACCCGATATTCTTCCCCATCGGGAACTGGGCCACCGGCTTCTTCGTGGTGTTCGCGCTGCTCG
CCGGCGTCGTCGGGGCGGCCTCCTGCATCGTCGGCTTCACCCACGTCCGCTTCTGGAACTACAGCAGCCTGCAGCCCGCG
GCGTCGCTCGGTCTGCTCGCCTGGGCCCTCACCGTCTTGGCCATGGGGTAAGCACGCGCGTTTCTCAAGTTACGCCATCT
CATCTCTACCAAATCAACTCGGTAGGTCTGACA-----------GAACCTTATATATCATGGATAAAATTGCTGCAGGCT
GGCTTGCCAGGAGATCAGTTTCGACCGAAGAAACGCGAAGCTGGTAAGATTCCTCCCGCTTTTGTCCTCGCCCTGTGCTT
CGTCAGGTACATATGGGGGGTTTGTGAACTGATCA--ACGCTCTGGGTTGGCAGGGGACCATGGAGGCCTTCACGATCGC
CCTGTCACTGACGCAGCTCGTCTACATCCTCGCGATCAAGGCGGGCGGTCACGGACCCGTCCACGTCGAACGGCAGCACA
ACGCCTTGGGCCGCTGAGCGGGTCCGAGGATACGGATTACGGACGCGTGAGAAGGAGCAGAGCCGCTGGAGAAAGTTTGC
GT-GTTGTTGTTGTGCTTTTCGCTTGATGTGATGATTCTTTGAGT-------------------TTGGCGTTGTAATATA
----TTGTGCATTCCTCTGGCCTTTGGATTTATTGATTGATGAATTCAAGCATCTGGAAAATCTGATTTCTTAGGACGTG
CAAC-AATCGTCATCACAGTACATACGTGTTCTTTTATTTATAAACAGAGCTACTACTCCGATTTCTATTAAGAGAAATC
ACAATGTTGTTACAGCTACCGGAACTAGCAGAAAATAACTAAAAAAAAAAGACGAATGATCT------TTTTTCGAATAT
AACCTCAGATCTATTAACAAGCAAAAAGCAATACAAGGCAACCCTGAAAAA-CACATAAATTACAAATCAGTCCTTGTGA
AGTAAGCCATCCTAAAGGAGCAAGATGAGAAACAGCCATCGACCCCCAAAGATTACAAAGGGATAAATCGACAAACTACC
GATACCCCACAAACCAACAGACTCCAAATCCACCTTTCTCGGAGTCTACAAGCCAAATCTCCAGGAAATAGATTAGAACA
CATTCCCTCCGTCCGAAAATACTTGTCGGATGAATTGATATATTTAGATGTATTTTAGTTCTAGATACATTCATTTTTAT
GCATTTCTCCAATAAGTACTTCCGGACGGAGGGAGTAGATTTCAAACAAATTCCAAATTATTATATAAACTGCAAATGAG
GCCAAAAGAAAAGCATGACAGCAAATGCATTCTTCAACATCAGCCTGGCTAAGGAGTAAAGGATTTTCTCTCTCTGCAAA
TCATCCAACCAAGATTCTGTTAGTCCCGAATCTCCGTCCATGTGTTGCCTTAAAGACTTCATTGACAAATAACTCAACCA
TTCTTATGCGTCACTTCATTGTTCCTTGTCTTTCTAGGTTTATCTGCAAAATATTCCAATCATGTAGCCACTTAATAATT
AGATTGACACAA----AAGGATCAACCACCTTGTTATTATAAAAAAATGGTACTATTTTCCAATTTCCATATGGTCCAAA
AAATAACAGATACACCAACCATCAC-------------------------------------------------------
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>chr3A_541
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--------------------------------------------------------------CCTAGAAAGT-----TAT
ATCGGCATCGACGAACTACACATATAGGACGG------------------------CGACGGGCACGTATGCGTAAGTTG
TACACATACCTAGCCGTAGGGAGAGGCACCA-----CAGGACAGCCGCAGCACGAAATCCTCCAATGCTCGGCTCCTTTC
CTTGGTCCGCAAGTCCCTCCCACCCACTCTTT-----ACAGCCACCCGGAGTTGTTCTTCCCTCCGGGCCCCGGCGAGGG
CGGCAAGCAACGAACAAATCCGAGCTGCATGCACTGCCCCGCGCCTCATGCATATTCATTCGTTCATATATATATATAAA
CCGCG----AAGCCGTCCAGTTTCTGAAAGCGCGCGTC---AGGCATTCCATTCCAGTAT-TTACTGATTGCCTCAATCG
TCAGACCATCAGCGACAGAGAGCTCGTGTAGATAACCCGAGTGGCGGTATTCTGCGGAAGTACAGTACGTACGTCCGGCG
AAAATGGCCGACAACTTGAAGCCCGTGGCCCTCTTCCTGCTGATGCTCAACTTGTGCATGTACCTCATCCTCGCCATCAT
CGGCGGGTGGGCCGTCAACTTGGCCATCGACCGCGGCTTCATCATAGGTACTG-----CTCTGCTCTGCTGCTCGCCCCA
AACCTCAAGGCCGTAGTTAGTTACAGAGCTAGAGCC----CAGTTGTTGATTTGTGGTTGCCTGCAGGCCCCGAGCTGCG
TCTCCCGGCGCATTTCCACCCGATATTCTTCCCCATCGGGAACTGGGCCACCGGCTTCTTCGTGGTGTTCGCGCTGCTCG
CCGGCGTTGTCGGCGCGGCCTCCTGCATCGTCGGCTTCACCCACGTCCGCTTCTGGAACTACAGCAGCCTGCAGCCCGCG
GCGTCGCTCGGTCTGCTCGCCTGGGCGCTCACCGTCCTAGCCATGGGGTAAGCGCGCGCGTTTCTCAGATTACACCGTCT
CATCTCTACCAAATCAACTCGTTTGGTCTCAGACTCTTACC-CTGAACCTTATATCATGGAT---AAATTGCTGCAGGCT
GGCTTTCCAGGAGATCAGTTTCGACCGAAGAAACGCGAAGCTGGTAAGATTCCTCCCGCTTTTGTCCTTGCTCTGTACTT
CGTCAGGTACATACGG----TTTGTGAGCTGATCAAAACGCTCTGGGTTGCCAGGGGACCATGGAGGCGTTCACGATCGC
CCTCTCACTGACGCAGCTCGTCTACATCCTCGCGATCAAGGCGGGTGGCCACGGGCCCGTCCAGGTCGAACG---GCACA
ACGCCTTGGGCCGCTGATCGGATCGGAGGATACGT-------ACGCCTGAGAAGGAGCAGAGCCGCCGGAGAAAGTTTGC
TC-GTTGTCGTTGTGCTTTTCGTTTGACGTGATGATTCTTTGAGTGGGATTGGTGAAATGGGGGTTGGCGTTGTAGTAAT
AAACTTGTGTGTTCCTCTGGCCTTTGGATTTATTGATTGATGAATTCAAGCATCTGGGAAATCTGATTTGTTAGGACGTG
CAAC-AATCGTCATCACAGTACATACGTGTTTTTTTTTTAATAAAGAGAGCTTCTTCTCCGATTTCTATCAAGAGAAATC
ACAATGTTGTTACAGCTACCAAAACAAGCAGAAAATAAATAAAAACAAT-GACGCATGATCCTTTTTATTTTCCGAAGAT
AACCTCAGACCTATTAACCAGCAAACAGCAATACAAGGCAACCCTGAAAAAACAAATAAATTACAAATCAGTCCCTGTGA
AGTAAGCCGTCGTAAAGGAGCAAGATGAGAAACACCCATCAACCCCCCAAGATCACAAAGGGATAAATCGACAAACTACC
GATGCCCCATAGACCAACAGACTCCAAATCCACCTTTCTCGGAGTCCACAAGCCAAA--CCCCCA---------------
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-----------------------------------------------------------------TTTTTTCTCTGAGAA
TCATCCAACCATGATTCTGTTAGTCCTGAATCTCCATCCATGTGTTGC-TTAAAGACTTCATTGGCAACCAGCTCAACCA
TTCTTATGCCTCACTTCATTGTTCCTTGTCTTTTTGGGTTTATCTGCAAAATATTCTGATCATGTAGCCACATAATAATC
AGATTGACACGGTTATAAGGGTCAGTTACCTTGTTATTATA-AAAAA-GGTACTATTTCCCAATTTCCATATAGTCCAAA
AAATAGCAGATACACCAACCATAACCAGG--TTTTTTCAATTTATTAAACCTCGGTATCCAAAGATTAAACAAATCATGA
ACATTGCCAGATATATCATGTAAATTAGCACATTTCATAATTAAAGCAATTTTGAAACAAAACACTTAA
>SNPs
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSS----------S--------S-S----S----S-----S---S--S---------------------S-S-----
-----------S----------------------------SSSS-S-SSSSSSSSSSSSSSSSSSSSSSSSSSS-----S
-------------S-S-----S----------S--SSS---------S--S--S----SSSS----------SSSSS---
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-------------------------------SS-SS--S---S-------------------------------------
---S---S------------------------SSSSS-------------------------------------------
---------------------S-----------------------S---------S--------------------SSSS
SSSSSSSSS-------------------------------------------S---------------------------
-------------------------S---------------------------------------S--------------
-------S-------------------------------------------------------------S----------
------------------------------------------------------------S------------------S
----------------------------------------------S---------------------S-----------
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----------------------------------------S---------------------------------------
------------------------------------------------------------------S-------------
------------------------S--------SS---SSSS-----------SSS------------------------
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----S---S------------SS-------------SS-----------------------------------------S
-------------------------------S----------------------------------S--------S----
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--S------S--------------------------------------------------S-------------------
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----S-------S-----S--------------S----------------------------------------------
------S---------------------------------S-------S-------------------------------
-----------------------------------------------------S--------------------------
-------S--------------------------------------------S---------------------------
------S-----S---------------S-----------S----------------S-----S----------------
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--------------------------------------------------------------------S-----------
----------------------------------S---------------------------------------------
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----------------------------SSS----------------------S------------------S-------
---------S-----------------------------------------------------------
>forward_986
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------CATCAGCGACAGAGAGCTCC------------------------------------------------------
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>reverse_2413
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------------GCCAACAGACTCCAAACCCA------------------------------------------------
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