>input_sequence_82520
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------------------------------------------AGAA------------------ACACACGATCAATGGC
AAAGAAGAACTGAGTTTGCTCTAAGCTAAGTAACAGATTGAGCCGGGAAAGCAGAGGAAAGAAAAGAAGGA---------
CCGAAAAA--TTAGTAGTGTAGAAGCTTAGCAGGGCAGCCATGGGGTTTTGCTATGGGTCTTCGGATATCATGGTGCTCC
CCAAGAACAGCTCTTCGGCTTCCTCGCTCTCACGGTCCCCTAAAGCTTTCGGCGATGGTGCCAAGAAGAAGCAGCCTCAA
GCTGTAAAGAAGGAAGAGAAAGAGAAGGAAGAGAAAGAGAAGAAGAGGG-------------------------------
-------------------------------------------------GCAACCTTGACCGGTCCGCCATGGCAGCGCC
CCACCTCCCCTTCCATTCTCGACCTGGCCTAATGTAA-------------------------------------------
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>chr3D_1_TraesCS3D01G508600
ACGGCTGAGTAATTAATCCGGAGCAGCAAAAATATAGATAACGCGCATAGCTCTCGGCGCATCGCATCGCGCATGGCTCG
CGGCACGGCGGCGAACGAGGAGGAGGAGCATGCGTGTAGGTCTCCTCTTATAATGCTCATACAAGTGGTAGAACAACTCA
CCTTATAAAGAGGTGCAAGTCTCTCTCCACTTCCGGGGTGGGACTAAATTTTAGTCCCACTTACACCACTCACAAGCTAT
GCATGAATGGGCCAAGAGAATTTTAGTTGGGCTTTAGGCCAAAGGCCTACTAGCAAATTCCAACACCTTTCTGCTCCCGA
ACTCAAATGAGCTCTGTGAACAGTAAAATAGGAAAAAATTCCAACCTTGTTTTTGGAAGAAACATTGTCAAAAAGTTCTA
TGTGTTTGCAAAAATTCGTTGTGGAATCACATTTTTATAAGTCGTGGCAAAAAAACAAATTTAGTGCTCCAAAATGCTTT
TGAAAGTCGCATTTTCAGAGTATCGATTTTTTTTGCCACGCCTTTTGGAACGTGATTTCACGACGAATTTTTGCAACTAC
TTAAACTTTTGTCAATGTTTCTCCCATTTTTTTTTTGGAATTATTGATTTTTTTTATTTTTTTCGATTTTACTGTTCACC
CGGGCTCAATTGAGCTCGGGAGGAAAAACTCTGCGTCCGCCTGCCAAGGCCTTTGCTTAGTCACCTGTGAACACTATCCC
AAATCAGCTAAGGCCAAGGAAAATTCGACTGACTGGTGGACCAGGAGAGTCCGCACGCCCACCCGTCAGGCACTCGCTGC
CGGAGTGCCCGTGTACGCGTGGTTGTGGGCGAGCATCACTGTCGTGGGAAGGCTCGTTTGCGGCTACATATGACCACATG
CCCGAATTTGAGAACAGGAGAGAGTTTTTGACATTTGACTCGCGTAGCAGC--ATCCATCCGCTGGATGTTTGGCTCTCC
TCCCCTATAAAAATGTCGCCATGGCTCCACTGCTTTTTCAACAGAA------------------ACACACGATCAATGGC
AAAGAAGAACTGAGTTTGCTCTAAGCTAAGTAACAGATTGAGCCGGGAAAGCAGAGGAAAGAAAAGAAGGA---------
CCGAAAAA--TTAGTAGTGTAGAAGCTTAGCAGGGCAGCCATGGGGTTTTGCTATGGGTCTTCGGATATCATGGTGCTCC
CCAAGAACAGCTCTTCGGCTTCCTCGCTCTCACGGTCCCCTAAAGCTTTCGGCGATGGTGCCAAGAAGAAGCAGCCTCAA
GCTGTAAAGAAGGAAGAGAAAGAGAAGGAAGAGAAAGAGAAGAAGAGGG-------------------------------
-------------------------------------------------GCAACCTTGACCGGTCCGCCATGGCAGCGCC
CCACCTCCCCTTCCATTCTCGACCTGGCCTAATGTAATAGACTATGCAGATTT-CAGAACAGTAGTGTAT---ACATACA
ATCCTGTAGGTTCTCTTATTAGCTTACGCAG-AGTTTGCCTCGGTTGTTCCAGTGAAGATTTCATTTGTATTGTGGCCAC
GTGTACTACTTTATTCATTCACGAGT----------------TGGTGTTCTTGTTAACTTACTAGTAGACATTACGTTCA
CTGTCATCAGGATAATATTTGTCTCCCTACTTTTTTCTTGGATATTATTATTCCTAAAGTTTATGTTAATATTTTGAATC
TCGAAACACTAAATCTGCAGCAACTGAATGTAAATGAAAAGTGCAGCAACAGAAATATGCACGCACACAATGTGCTAATT
TTC----TATATCACAAAATTCCTACATCTAAATTGGTTTCCTAATCGACAACACATATTCATCAAGAAGATTCAAATCC
GACACATATCAGTATAGAACAAAGAAGGACAGGAAAGCGGGAGGAGGAGGCTCACGGGTAGGGGTAGGTGGAGGTGCTGG
TGGTAGCCTAACACAGAGGAGGTCCAGGGCGGGCGATAACCCGCAATCTGACTGCGACCCAGCCTGCACTGAGCACGGGA
TC-TCAGCGACCCATGCGTGCACGGCTCCATCCTCGACGGCGTGGACTGCGAGCAGTGGCTTGGGGTGGGAGGAGGGAGT
CCACAACGGGGAGCACCTCCGCTGAGGTGGCGTTTAAGGCGATCGGCGTGCCGTTGCTTCTCTGGCACCTGGG-GGAGTA
AGAGGAGAGGCGCTGAGAGCGTGGTCGTCGGAGGCCGTGATGTTCGTCAGAGA------AGGGGCGGCACCCTGCGGATC
CAGAGCACCCACGCACCCGGCGACCCTCCATAGGCTCCGACTGGCGACATCCCGCCCGATCCTCCTCTGACCACCGCTCC
CCGATGTGTGAGCCCACTCGGAGGTGCGATGTCGACGAGAATGTGCGGCGCTTAGAAAGGGGAGGGGGAGGTGAGATCCT
GATGAGCGAGCTCCATCCACGACCCGATCT
>chr3D_746
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-------------------------CGACTGACAGGTGGACCAGGAGAGTCCGCAAGCCCACCCGTTAAGCACTCGCTGC
CGCTGTGCGCGCGTACGCGTGGTTGTGCGCGAGTGTCACTGTCCATGGAAGGCTCGTGTGAGGGTACTGATGACCACATG
CTCGAATTAGAGAACAGGAGAGAGTTTT-GACATTTGACTCCGATACCAGATGATCCATCCTC-----------------
-CCCCTATAAAAATGTCTCCAGGGCTCCCCTGCTTTTCCAACAGAAACACACAAGCACACACTGACACACGATCAGTAGC
AGAGAAGACCTGAGTTTTCTCTAAGCT-----------------TGGAGAGCAGAGGAAAGAAAGAAAGAGA------GA
CAGGGAAATTTTAGTGGTGTAGAAGCTTAGCAGGGCAGACATGGGGTTTTGCTGTGGGCCTTCAGATGTCAAGGTGCTCC
CCAAGAACCACTCTTTGGCGTCCTCGCCCTCGCCGTCCGCTAAAGAATCCAGCGGTGGTGGGAAGAAGAAGCAGCCGCAG
GGCGTAAAGAAGGAGGG---------------GAAAGAGAAGAAGAGGG-------------------------------
-------------------------------------------------GCAACCTTGACCGGGCTGCCATGGCGTCGCC
CCGCCTCCCCTTCCATTCTCGACCCGGCCTAATGTAATAGATTATGAAGATTT-CAGAACAACAGTGCAT---ACATACA
ATCCTGTAGGTTCTCTTATTAGCTTACGCCTGGGTTTGCCTTGGTTGTTCCGCTGAAGATTTCATTTGTACTGTGTCCAC
ATGTACTATTTTATTCATGGACGGTCG-GTTGATGCAATTGCTGGTATTCTTGTCAATTTACTAGTAGACATTACATTCA
TTGTCATCAGGATACTATTTGTTTCCCTACTTTTATCTTGGATTG--TTATTCCT-------------------------
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>chr3D_971
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------------ATGTCGCCAGGGCTCCACTGCTTTTCCAACAGAA--------------------ACACGATCAGTGGC
AAAGAAGAACTGAGTTTGCTCTAAGCTAAGGAACAGATTGAGCCTGGAAAGCAGAGAAAAGAAAAGAAGGAG------GA
CCGAAAAATT--ACTAGCGTGGTAGCTTAGCAGGGCAGCCGTGTGGTTTTGCTGTGGGCCTTTGGATGTCCAGGTGCTCC
CCA-GAACATCTCTTCGGCGTCCTCACCCTCGCCGTCCGATAAAGATTCCGGCGATGGTGGCAAGAAGAAGCAACCTCAA
GCCGTAAACAAGGAAGG---------------GAAAGAGAATCGGGATCATGGGAAGAAAGTGAGGATCGGGATCATGGG
AGATGAGAAGACAACGAGGATCGGGATCATGGGAAGCAACCTCGAGGTTGCAACCTTGACCGGGCCGCCATGGCGGCGCC
CTACCTCCCCTTCCATTCTCGACCCGGCCTAATGTAACAGATTAGGCAGATTT-CAGAACAATAGTGCAT---ACATACA
ATCCTGTAGGTTCTCTTATTAGCTTACGCCGTAGTTTGCCTCGGTTGTTCCAATGGAGATTTCATTTGTATTGTGGCCAC
GTGTACTACTTTATTCATTCACGGATTTGTTGATCCAATTGCACGTGTTTTTGTTAACTTACTAGTAGACATTATGTTCA
TTGT-ATCAGGATAATATTTGTTTCCCTACTTTTTTCTTGGATATTATTATT----------------------------
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>chr3A_1005
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----------------------------------------------------------------ACACACGATCAGTAGC
AGAGAAGACCTGAGTTTTCTCTAAGCT-----------------TGGAGAGCAGAGGAAAGAAAGAAAGAAAGAGAGGGA
CGGGGAAATTTTAGTGGTGTAGAAGCTTAGCAGAGCATCAATGGGGTTTTGCTGTGGGTGTTCGGATGTCAAGGTGCTCC
CCAAGAACAACTCCTTGGCTTCCTCGCCCTCGCCGTCCGCTAAAGATTCCAGCGATGGCGCCAAGAAGAAGCAGCCTCAA
GCCGTAAAGAAGGAAGG---------------GAAAGAGAAGAAAAGGA-------------------------------
-------------------------------------------------GCAACCTTGACCGGGCCGCCATGGCGTCGCC
CCGCCTCCCCTTCCATTCTCGACCCGGCCTAATGTAATAGAGTTTGCAGATTTTCAGAACAATAGTGCATACAACATACA
ATCCTGTAGGTTCTCTTATTAGCTTACGCCCGGGTTTGCCTCGGTTGTTCCGCTGAAGATTTCATTTGTACTGTGTCCAC
GTGTACTGTTTTATTCATGGACGGTCG-GTTGATCCAATTGCTGGTGTTCTTGTCAACTTACTAGTAGACATTACATTCA
TTGTCATCATGATAATATTTGTTTCCCTACTTTTATCTTGGATTG--TTATTCCT-------------------------
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>chr3A_1005
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----------------------------------------------------------------ACACACGATCAGTAGC
AGAGAAGACCTGAGTTTTCTCTAAGCT-----------------TGGAGAGCAGAGGAAAGAAAGAAAGAAAGAGAGGGA
CGGGGAAATTTTAGTGGTGTAGAAGCTTAGCAGAGCATCAATGGGGTTTTGCTGTGGGTGTTCGGATGTCAAGGTGCTCC
CCAAGAACAACTCCTTGGCTTCCTCGCCCTCGCCGTCCGCTAAAGATTCCAGCGATGGCGCCAAGAAGAAGCAGCCTCAA
GCCGTAAAGAAGGAAGG---------------GAAAGAGAAGAAAAGGA-------------------------------
-------------------------------------------------GCAACCTTGACCGGGCCGCCATGGCGTCGCC
CCGCCTCCCCTTCCATTCTCGACCCGGCCTAATGTAATAGAGTTTGCAGATTTTCAGAACAATAGTGCATACAACATACA
ATCCTGTAGGTTCTCTTATTAGCTTACGCCCGGGTTTGCCTCGGTTGTTCCGCTGAAGATTTCATTTGTACTGTGTCCAC
GTGTACTGTTTTATTCATGGACGGTCG-GTTGATCCAATTGCTGGTGTTCTTGTCAACTTACTAGTAGACATTACATTCA
TTGTCATCATGATAATATTTGTTTCCCTACTTTTATCTTGGATTG--TTATTCCT-------------------------
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>chr7B_1605
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--------------------------------------------------------AAGTTTATCTTAATATTTTGAATC
TCGAAACACTAAATCTGCAGCAACTGAATGTAAATGAAAAGAGCAGCAATAGAAATATGCACGCACACAATGTGCTAATT
TTC----TATATCACAAAATTCCTACATCTAAATTGGGTTCCTAATCCACAACACATATTCATCAAGAAGATTCAAATCC
AACACATATCAGTTTAGGACAAAGAAGGACAGGAAAGCGGGAGGAGGAGGCTCACGGGTAGGGGTAGGTCGAGCTGCTGG
TGGTAGCCTAACACAGAGGAGGTCCAGGGCG----ATAACCAGCAATCTGGCTGCGACCCAGCCTGCACTGAGCACGGGA
TCTTCAGCGACCCATGCGTGCACGGCTCCATCTG-GACGGCGTGGACCGCGAGCGGTGGCTTGGGGTGGGAGGAGGGGTT
CCACAACGGGGAGCACCTCCGCTGAGGTGGCGTT-AAGGCGATCGCCGTGTAGTTGCTCCTCTGGCACCTGGGGGGAGTA
AGAGAAGAGGCGCTGAGAGCGTGGTCGTCGGAGGAGGGGCTGCCGGATGGAGCGACGTGAGGGGCGGCACCCGGCGGATC
CAGAGCACCCACGCACCCGGCGACCCTCCATAGGCTCCGACTGGCGAGATCCCGCCCAATCCTCCTCTGACCACCGCCG-
CCGATGTGTGAGCCCACTCGGAGGTGCGATGGCGACGGGAATGTGCAGCGCTTAGAAAGGGGAGGGGGAGGTGAGATCCT
GATGAGCGAGCTCCATCCACGACCCGGTCT
>chr6A_1605
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--------------------------------------------------------AAGTTTATCTTAATATTTTGAATC
TCGAAACACTAAATATGCAGCAACTGAATGTAAATGAAAAAAGCAGCAATAGAAATATGCACGCACACAATGTGCTAATT
GTCTACGTATATCACAAAATTTGTACATCTAAATTGGGTTCCTAATCCACAACACATATTCATCAAGAAGGTTCAAATCC
AATACATATCAGTTTAGAACAAA---GGACAGGAAAGCGGGAGGAGGAGGCTCACGGGTAGGGGTAGGTCGAGGTGCTGG
TGGTAGCCTAACACAGAGGAGGTCCAGGGCG----ATAACCAGCAATCTGGCTGCGACCCAGCCTTCACTGAGCAAGGGA
TCTTCAGCGACCCATGCGTGCACGGCTCCATCCTCGACGGCGTGGACTGCGAGCGGTGGCTTGGGGTGGGAGGAGGGATT
CCACAACGGGGAGCACCTCCGCTGAGGTGGCGTTTAAGGCGATCGCCTTGTTGTTGCTCCTCTGGAACCTGGGGGGAGAA
AGGGGAGAGGCGCTGAGAGCGTGGTCGTCGGAGGAGGGGCTGCCGGATGGAGCGACGTGAGGGGCGGCACCCGGCGGATC
CAGAGCACCCACGCACCCGGCGACCCTCCATAGGCTCCGACTGGCGAGATCCCGCCCAATCCTCCTCTGACCACCGCCG-
CCGATGTGTGAGCCCACTTGGAGGTGCGATGGCGACGGGAATGTACAGCGCTTAGAAAGGGGAGGGGGAGGTGAGATCCT
GATGAGCGAGCTCCATCCACGACCCGATCT
>SNPs
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSS--------S---------------------S----------S-S-----------
--SS----S--S---------------S-----SS--------SSS-----------S--S--S---SS-----------
-S------S-------------------S------------SSS--S---S----------S-SSSSSSSSSSSSSSSSS
S--------------------S---------------S-------------------------------------S----
------------------------------S-------------S-----------------------------------
-----------------------------------------------------S-------------S---S--------
---------S-----------------S---S-S----S------S--S-------------------------------
--S-------------SSSSSSSSSSSSSSSS------------------------------------------------
---------------------------------------------------------------S----------S-----
------------------------S----------------S-------------------S-----S------------
-----------------------------S----------------------S---------------------------
-----------------------SS-------------------------------------------------------
S---------------------S--------------------------------S--------S---------------
-----------------------------------------S-------S------------------------------
-------------------------------------S---------S--------------------------------
S------------S-------------------------------------------------------S----------
-------------------------------SSSS------S--------S-----------------------------
------------------------------------------------------S-----------------------S-
---------------------------------------------S----SS------S---------------------
----------------------------------SS-S-S--SSS-SSS---S-------------------S-------
-----------------------------------------------S---------S-------------------SSS
-------------------------------S-----S--------S---------------------------------
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>forward_961
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-------------------------------------------------------------GCTGGATGTTTGGCTCTCC
T-------------------------------------------------------------------------------
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>reverse_2280
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---------------------------------------ATGTTCGTCAGAGAAGGGGC---------------------
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