>input_sequence_78069
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------------------------------ATGGCGGATCGGCACGGCGAGGGCGGCGTGGCCTCGGCGCGGCGGCCGGG
GCGCACGGACCTGGACGACCTGTCGACGACGCTGCTGCAGCGCGTGCAGGCGCACCTCCCGAACGCGACGCAGGTGGTGG
GCCTGCTGACCCTGCTGCTCGCCGGCGCGGCGCTGCTGGTGCTGGCGGGGCTGACGTTCACGGGCGCCGTGGTGGCGCTC
GTCTTCCTCGGCCCGCTGGCGCTGCTGACCAGCCCCATCTGGGTGCCGTTCTCCTTCGCGCTCCTCGTGGTCGTCGTGGC
GGCGCTCTCCTTCGTCGGGTTCGCCGTGGCCGCGCTCGCCGCGGCCACCTGGGCGTACCGGTACTTCACGGGGCGGCACC
CCGTGGGCGCCGACCGCGTGGACCGCGCCCGCAGCCGCCTCGCCGACACCGCCAGCCACGTCAAGGACTACGCCCGCCGC
GAGTACGACGGCTACCTCGGCAACCGGACCAAGGACGCCGCCCCCGGCGCCTAG--------------------------
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>chr1A_1_TraesCS1A01G415100
ATCATTCATCCACCTGCGCCGGCCAGTCATGGTGCTTGCTGCTTGGCGAGGTGAAGCTCTAGCTCTTCATCGCCATCTTC
TCCTCCGCGAGGAGGATGAGGAGCCAGCAAGTGCGGCACTCGGCCAAACCCAACACGACTCGCTCGCCGTGCCCCGCCGT
CTCTCCGCCATAAGCAGCACGCGGGCTGGCTTGGAGGGGAGGAGCAGCACGCACCAATGGCAGGGCGGAGGCCGTTTAGG
AACACGAAAACTGCAACGGTTGTTCTACGGGACGGCAGCAGGCGTGGGCGCGACCATCGACGGGCTGCTGCAGGCGTTCG
CGTACAGCAAGTTGTCCGGCTCCAGTGCATAGG---GGCGGCAGTTCAACTGCTTCGTCTGCCTCAACAAGTTCGCCGCT
AACCAACGCCTCCGCCGTTCTGCGGCCGCCCGTTCCACCATTTTAGGAGAGAGAGGAGAGGAATTGTGGATAAGGTGGAG
ATTGAAGAACGGAAATGACATGTGGGCCAGTGTTGTAAATGAGAGTACAAATTAAATCCGGTCGGGATCACTCCCCAAAA
GGATACCGCCCCTGCGAACAGTGCCGCCGGCGCAACGACAAAGCATGTACGCATGCCTGCCCGGCCACCCGTCGGCCGTG
GCCTGCCTGGCATCGCCGTGTCAGTGTCACACTCAGCCAGC---GCCCCGAACCGTCGCCCCCGCCGCACACGTGCCGCA
CCAGATGCCC------ACTCAACGGCATCACGCCAGCAGCATATCCTGCCGTGCCGCCGGTAAAAACTAG----------
--ACCCGATCCGCAGAGCACGGTGAATGTAGACA-------------------------CCCCGGCCGTCGCCGCACACA
CGTCGCGCATGCACGGTCGGCGCCCCGGCCACGTGCCCGCGCGCCCGCGTCCCTCTCCGCCCCTTTAACTCCTTG-CCCC
GCCATGCCGTCTCCTTCTCCCC----CCGCTCGGCCTAGCTGCCACCACTCTTCCTCCTCCTCCTCCTCCTAGTCCCGGT
CACAGCCT----------------CCTTCCATGGCGGATCGGCACGGCGAGGGCGGCGTGGCCTCGGCGCGGCGGCCGGG
GCGCACGGACCTGGACGACCTGTCGACGACGCTGCTGCAGCGCGTGCAGGCGCACCTCCCGAACGCGACGCAGGTGGTGG
GCCTGCTGACCCTGCTGCTCGCCGGCGCGGCGCTGCTGGTGCTGGCGGGGCTGACGTTCACGGGCGCCGTGGTGGCGCTC
GTCTTCCTCGGCCCGCTGGCGCTGCTGACCAGCCCCATCTGGGTGCCGTTCTCCTTCGCGCTCCTCGTGGTCGTCGTGGC
GGCGCTCTCCTTCGTCGGGTTCGCCGTGGCCGCGCTCGCCGCGGCCACCTGGGCGTACCGGTACTTCACGGGGCGGCACC
CCGTGGGCGCCGACCGCGTGGACCGCGCCCGCAGCCGCCTCGCCGACACCGCCAGCCACGTCAAGGACTACGCCCGCCGC
GAGTACGACGGCTACCTCGGCAACCGGACCAAGGACGCCGCCCCCGGCGCCTAGTCGCCGCGCGTG-------------C
GTGCGTGCACGTCGTGGCTAGATCGTTATTACGATATGCTCTTCTCTCTTTGCGTCTCTGTACTCTCCCAGGTGTTGGTG
ATCACGTCGTCTTCACGTGTATGATCTACTATTAGTTTCGTTTGTTCGTTCT----TTCTTGCCTCGCCTTGTACTGTTT
AGTCAGATCGATCGACGATCATAAGGCACACGTCCAACGATCATGTTGATTAATTCCGGCGATGAACTGGTCGTGCACTG
GCGCTGTAGGTAGATCGTGTTGGACCGACGGCCATCTTGGCCACGCACTAGCATAGACTGCATAGTGGTGCAAGAAATGT
ATCGGTTACACACTTATACTCGGATGCAGAGTTCTTCAGATTACACTTGGATGCAGAGTTCTTCAGTTACACTCGGATGC
AGAGTTCTGCAGAGGAAACTGCAGGGGATTCAGAGCCTT-GGGGACGAAGGAGGAGAGAGGAACAGGGTAGGTCTGGCAA
CACAATGTCGACCGATCGATGCCTCACGTTCAGCTCATAAATATCGTATAC-----AGATTTTTCATGTGGTATACATCC
GTCGTCATAAATGTAGTGTG---------------------------GACCCCCTAAAAAAATGTAGTGT--GGACATTT
TTCATGTATATACATCGGGACGACATTTTTCATGTAAAAATCCGGACGGCGCTTTTCATCGACTTATGTTTTTCTTTTTT
TATTAATACTAGCTAAATAGCCAATAAAACATAACACATGCTCTTAACTCAACAACCATCACTCAAGATCACAATAGATT
CGTCACTTTTATTTTTGCGAGACATTATATTTGTGTATTTGTGTTGGCGCTTATCCTTCTCATCCTTGTTGGCGATGGCC
TTGGTGTTTATACAAAATAATAAAGCCTTGGTGTTTATACAAAATAATAAAAAATGTGTGTTGAATATGGTTATTCTAAG
GCATCTCTCCCTCCCTTCTCCCTCTTTCTTCCTCTCTGCTTTCTCTTAATCTCGTGATGAGAAATT
>chr1A_1
ATCATTCATCCACCTGCGCCGGCCAGTCGTGGTGCTTGCTGCTTGGCGAGGTGAAGCTCTAGCTCTTCATCGCCATCTTC
TCCTCCGCGAGGAGGATGAGGAGCCAGCGAGTGCGGCACTCGGCCAAACCCAACACGACTCGCTCGCCATGCCCCGCCGT
CTCTCCGCCGTTAGCAGCACGCGGGCTGGCTTGGAGGGGAGGAGCAGCACGCGCCAATGGCAGGGCGGATGCCGTTTAGG
AACACGAAAACTGCAATGGTTGTTCTACGGGACGGCAGAAGGCCTGGGCGCGACCATCGACGGGCTGCTGCAGGCGTTCG
CGTACAGCGAGTTGTCCGGCTCCAGTGCACAGGGGCGGCGGCAGTTCAACTGCTTCGTCTGCCTCAACAAGTTCGCCGCT
AACCAACGCCTCCGTCGTTCTGCGGCCGCCCGTTCCACCATTTTAGGAGAGAGAGGAGAGGAAATGTGGATAAGATGGAG
ACTGAAGAACGGAAATGACATGTGGGCCAGTGTTGTAAATGAGAGTACAAATTAGACCCGGTCGGGATC-----------
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>chr1D_1
ATCATTCATCCACCTGCGCCGGCCAGTCGTGGTGCTTGCTGCTTGGCGAGGTGAAGCTCTAGCTCTTCATCGCCATCTTC
TCCTCCGCGAGGAGGATGAGGAGCCAGCGAGTGCGGCACTAGGCCAAACCCAACACGACTCGCTTGCCGTGCCCCGCCGT
CCCTCCGCCGTTAGCAGCACGCGGGCTGGCTTCGAGGGGAGGAGCAGCACGCGCCAATGGCAGGGCGGAGGCCGTTTAGG
AACACGAAAACTGCAACGGTTGTTCTACGGGACGGCAGCAGGCCTGGGCGCGACCATCGACGGGCTGCTGCAGGCGTTCG
CGTACAGCGAGTTGTCCGGCTCCAGTGCACAGGGGCGGC---AGTTCAACTGCTTCGTCTGCCTCCACAAGTTCGCCGCT
AACCAACGCCTCCGCCGTTCTGCGGCTGCCCGTTCCACCATTTTACG--AGAGAGGAGAGGAATTGCGGATAAGGTGGAG
ACTGAAGAACGGAAATGACATGTGGGCCAGTGTTGTAAGTGAGAGTACAGATTAAACCCGGTCGGGATC-----------
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>chr3D_1
ATCATTCATCCACCTGCGCCGGCCAGTCGTGGTGCTTGCTGCTTGGCGAGGTGAAGCTCTAGCTCTTCATCGCCATCTTC
TCCTCCGCGAGGAGGATGAGGAGCCAGCGAGTGCGGCACTAGGCCAAACCCAACACGACTCGCTTGCCGTGCCCCGCCGT
CCCT-CGCCGTTAGCAGCACGCGGGCTGGCTTCGAGGGGAGGAGCAGCACGCGCCAATGGCAGGGCGGAGGCCGTTTAGG
AACACGAAAACTGCAACGGTTGTTCTACGGGACGGCAGCAGGCCTGGGCGCGACCATCGACGGGCTGCTGCAGGCGTTCG
CGTACAGCGAGTTGTCCGGCTCCAGTGCACAGGGGCGGC---AGTTCAACTGCTTCGTCTGCCTCAACAAGTTCGCCGCT
AACCAACGCCTCCGCCGTTCTGCGGCTGCCCGTTCCACCATTTTACGAGAGAGAGGAGAGGAATTGCGGATAAGGTGGAG
ACTGAAGAACGGAAATGACATGTGGGCCAGTGTTGTAAGTGAGAGTACAAATTAAACCCGGTCGGGATC-----------
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>chr5B_1
ATCATTCATCCACCTGCGCCGGCCAGTCGTGGTGCTTGCTGCTTGGCAAGGTGAAGCTCTAGCTCTTCATCGCCATCTTC
TCCTCCGCGAGGAGGATGAGGAGCCAGTGAGTGCGGCACTCGGCCAAACCCAACACGACTCGCTCGCCGTGCCCCGTCTT
CTCTCCGCCGTTAGCAGCACGCGTGCTGGCTTGGAGGGGAGGAGCAGCACGCGCCAATGCCAGGGCGGAGGCCGTTTAGG
AACACGAAAACTGCAACGGTTGTTCCACGCGACGGCAGCAGGCCTGGGCGCGACCATCGACGGGCTGCTGCATGCGTTCG
CGTACAGCGAGTTGTCCGACTCTAGTGCACAGGGGCGGC---AGTTCAACTGCTTCTTCTGCCTCAACAAGTTCGCCGCT
AACCAACGCCTCCGCCGTTCTGCGGCCGCCCGTTCCACCATTTTAGGAGAGAGAGGAAGGGAATTGGGGATAAGGTGGAT
ATTGAAGAACAGAGATGACATGTGGACCAGTGTTGTAAGTGAGAGTACAGATTAAACCCGGCCGGGATCA----------
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>chr1D_551
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-------------------------------------------------------------------------CCCAAAA
GGAGATCGCCGCTGTGAACAGTGCCGCCGGCGCAACGACAAAGCATGTACGCAGGCATGCCTGGCCACCCGTCGGCCGTG
GCCTGCTTGGCATCGCCGTGTCAGTGTCACACTCAGCCAGCAGCGCCTCGAACCGTCGCCCCCGCCGCACACGTGCCGCA
CCAGATGCCC------ACTCAACGGCATCACGCCAGCAGCATATCCTGCCGTGCCGCCGGTAAAAACTACAGTAAAAATG
GAACCCGATCCGCGGAGCACGGTGGAATATAGACAAGGGGGCAGAGCCGAGCAGAGCAGCCCCGTCCGTCGTCGCACACA
CGTCGCGCATGCACGGTCGGCGCCCCGGCCACGTGCCCGCGCGCCCGCGTCCCTCTCCTCCCCTTTAACTCCTTG-CCCC
GCCATGCCGTCTCCTTCTCCCCAGCCCAGCTTGGCCTAGCTGCCACCACCCCTCTTCCTCCTCCTCCTAGGCTAGCTCCC
TCCGGCAGACT----------CTCCCTTCCATGGCGGATCGGCACGGCGAGGGCGGCGTGGCCTCGGCGCGGCGGCCGGG
GCGCACGGACCTGGACGACCCGTCGACGACGCTGCTGCAGCGCGTGCAGGCGCACCTCCCGAACGCGACGCAGGTGGTGG
GCCTGCTGACCCTGCTGCTCGCCGGCGCGGCGCTGCTGGTGCTGGCGGGGCTGACGTTCACGGGCGCGGTGGTGGCGCTC
GTCTTCCTCGGCCCGCTGGCGCTGCTGACCAGCCCCATCTGGGTGCCGTTCTCCTTCGCGCTCCTGGTCGTGGCCGTGGC
GGCGCTCTCCTTCGTCGGGTTCGCCGTGGCCGCCCTCGCCGCGGCCACCTGGGCGTACCGGTACTTCACGGGGCGGCACC
CCGTGGGCGCCGACCGCGTGGATCGCGCCCGCAGCCGCCTCGCCGACACCGCCAGCCACGTCAAGGACTACGCCCGCCGC
GAGTACGGCGGATACCTCGGCAACCGCACCAAGGACGCCGCCCCGGGCGCCTAG--------------------------
------GCACGTCGCGGCTAGATCGTTATTACGATATGTTCTTCTCTCTTTGCGTCTCTGTACTCTCCCAGCTGTTGGTA
ATCTCGTCGTCTTCACGTGTATGAACTACTATTAGTTTCGTTTGTTTGTTAG----TTCTTGTCTCGTCTTGTACTGTTT
AGTCAGATCGATCGACGATCATAAGGCGTACCTCCGGCGATCATGTTGATTAATTCCGGCGATGAACTGGTCATGCACTG
GCGCTGTAGGTAGATCGCGTTGGACCGACGGCCATCTTGGCCACGCACTAGCAGAGACTGCATAGTGGAGCAAAAAATGT
ATCGGTTACACACTTGTACTC---------------------------GGATGCAGAGTTCTTCAGTTACACTCGGATGC
AGAGTTCTTCAGAGGAAACTGCAGGGGATTCAGAGCCTT-GGGGACGAAGGAGGAGAGAGGAACAGGGTAGGTCTGGCAA
CACAATGTCGACCGATCGATGCCTCACTTTCAGCTCATAAATATCGTATAC-----AGATTTTTCATGTGGTATACATCT
GTC------------------------------------------------------------GTAGTGT--GGACATCT
TTCATGTATATACATC------ACATTTTTCATGTATATATCCGGACGGCGCTTTTCATCGACTTATGTTTTTCTTTTTT
ATTAATA-------------------------------------------------------------------------
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>chr1B_551
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-------------------------------------------------------------------------CCCAAAA
GGATACCGCCCCCGCGAACAGTGCCGCCGGAGCAACGACAAGGCACGTACGCAGGCATGCCTGGCCACAAGTCGGCCGTG
GCCTGCTTGGCATCGCCGTGTCAGTGTCACACTCAGCCAGCAGCGCCTCGAACCGTCGCCCCCGCCGGACACGTGCCGCA
CCAGATGCCCGCTGAGACTGAACGGCATCACGCCAGCAGCATATCCTGCCG-----CCGGTAAAAACTAG----------
--ACCCGATCCGCAGAGCACGGTGAATGTAGACA-------------------------CCCCGGCCGTCGCCGCACACA
CGTCGCGCATGCACGGTCGGCGCCCCGGCCACGTGCCCGCGCGCCCGCGTCCCTCTCCGCCCCTTTAACTCCTTCCCCCC
GCCATGCCGTTTCCTTCTCCCC----CAGCTTGGCCCAGCTGCCACCCCCACTCTTCCTCCTCCTCCTAGGCTAGCTCCC
TCCGGCTCCGGCAGACTCTCCCTCCCTTCCATGGCGGATCGGCACGGCGAGGGCGGCGTGGCCTCGGCGCGGCGGCCGGG
GCGCGCGGACCTGGACGACCAGTCGACGACGCTGCTGCAGCGCGTGCAGGCGCACCTCCCGAACGCGACGCAGGTGGTGG
GCCTGCTGACCCTGCTCGTCGCCGGCGCGGCGCTGCTGGTGCTGGCGGGGCTGACGTTCACGGGCGCGGTGGTGGCGCTC
GTCTTCCTCGGCCCGCTGGCGCTGCTGACCAGCCCCATCTGGGTGCCCTTCTCCTTCGCGCTCCTGGTCGTGGCCGTGGC
GGCGCTCTCCTTCGTGGGCTTCGCCGTGGCCGCGCTCGCCGCGGCCACCTGGGCGTACCGGTACTTCACGGGGCGGCACC
CCGTGGGCGCCGACCGCGTGGACCGCGCCCGCAGCCGCCTCGCCGACACCGCCAGCCACGTCAAGGACTACGCCCGCCGC
GAGTACGGCGGCTACCTCGGCAACCGCACCAAGGACGCCGCCCCCGGCGCCTAGGCGCGCGTGACCCGGCCGTCGCCGCC
GCGCGTGCACGTCGCGGCTAGATCGTTA---CGATATGTTCGT-------------TCTGTACTCTCCCAGCTGTTGGTG
ATCTCGTCGTCTTCACGTGTATGAACTACTATTAGTTTCGTTTGTTTGTTCTTAATTTCTTGTCTCGTCTTGTACCGTTT
AGTCGGATCGGTCGACGATCATAAGGCGTACGTCCGGCGATCACGTTGATTAATTCCGGCGATGAATTGGTGCTGGAGGT
C-----------GATCGTGTTGGACCGACGGCCATGTTAGCCACGCACTAGGTATCGA----------------------
-------------TTACAGTCGGATGCAGTC-------------------ATGCAGTGTTCGTCAGTTACACTCGGGTAC
AGAGTTCTTCAGAGGAAACTGCAGGGGATTCAGAGCATTGGGGGACGGAGGAGGAGAGAGGAACAGGGTAGGTCC-GCAA
CACAAATGT---CGATCAATGCCTCACTTTCAGCTCATAAATATCGTATGTATACAAGATTTTTCATGTGGTA--CATCC
GACGTCATAAATATAGTGTGCGGACATTTTCCATGTATATACATCGGGACGACATTAATAAATATAGTGTGCGGACATTT
TTCATGTATATACATCGGGACGACATTTT---------------------------------------------------
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>SNPs
----------------------------S---------------------------------------------------
----------------------------S---------------------------------------------------
---------S-S----------------------------------------S---------------------------
-------------------------------------------S------------------------------------
--------S--------------------S--------------------------------------------------
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--------------------------------------------------------S-------------SSS-------
-----------------------------------------------------S--S----S------------------
------S----------------------------------------S--------------------------------
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---------------------------S---S-----------------S-S--S-------------SSSSSSS-SSSS
SS-S--SS------------------------------------------------------------------------
--------------------S-----------------------------------------------------------
-------------------------------------------------------------------S------------
-----------------------------------------------------------------S--S--S-S------
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-------S------------------S---------------------------S---SSSSSSSS--------------
-S------------S-----------------------S--------------------------------S--------
---S--------------------S---------------------S---------------S----S------------
---------------------------SS------SS-----------------------------------S-------
-----------------------------------------------------S--------------S----S------
-----------------------------SSSSSSSSSSSSSSSSSSS--------------------------------
--------S-----------------------------------------------------------------------
---------------------------S----------------------------------------------------
------------S-------------------------------------SS-S-S--S---------------------
------------------------------------S-S-----------------------------------------
SS-S-SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
>forward_1030
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--------------------------------------------------CTTCCTCCTCCTCCTCCTCC----------
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>reverse_2558
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-----------------------------------------------------------------------------AAG
GCATCTCTCCCTCCCTT-------------------------------------------------
