>input_sequence_84284
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------------------------------------------ATGAACGGCGGCGGCAGGAAGTTCGGCGGCGGGCGGCT
GCCGACGGGGACCCCGTCGCTGGCCTGGTCATCGGTGGTCGTGGTCGCCTCCCTCCTCGCGGGGGCCTCCGTCGTCCACA
ACGTCTACAAGCCTGACATGGTACAGCAG----TCT------------CTGCCACCCACCCGTACATTGCACCATGCCCG
CAACCTGTTCGACGCAATGCACGCTCACGGCTCGCCACTCTTTCTTTTCTTCTGGTCCACCCGCAGACCATTCCGCCGGT
GGAGAGTGACGACGGAGGAGGCGGCGGCATTGACGGCAAGCAGAGCTGA-------------------------------
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>chr3D_1_TraesCS3D01G466400
TTACTAAACTCATAAATTAATCACTATACAAAGCATTGCAAGAGCTAATCTAGCAATGAGAGATGAAAGGACAAAGTTGC
TAACCTTTGTGATCATTTGAATGGATGGGGGCCTTCAAATCTTGACAATTTTTGGGCAAAATGTGTGATGAGCTCGAGAG
GAAGAGGGGAAGAACAGAGAGGAGAGGGGAAAGGGGAAGAACAGAGCGAGCTCGGGTGGACGAAGGGTTTATGTAGGACG
ACCTTTAGCACCGGTTCGTGCCACGAACCGGCACTAAAGGTGCTGGAGGGGCCCCGGACTGACAACATCCTGCCACCACT
CACTTTAGTACCGGTCCGTGGCACGAACCGGTGCTAAAGGTCGGCCATGAACCGGTACTAATGAAAGCGGCCGGCTAGCC
GTTGGAACCGGCACTAATGCACACATTAGTGCCGGCTCAAAAGCAAACCGGCACTAATGTGGTTGACATTTGACCCTTTT
TCTACTAGTGCTTGTCCATTTTTTAGTTTTCTTTTTTGAGACTGTGCTCCTTTTAATAAAGGATAGAACTTTTTCTTTGA
GAAATATTATAAAACAATTTAAAATATTCTGAAACTTTTTAGTGACAAACATTGATAAAAGTTTTCAAAGCATGCAAAAT
TTTATCATGAAATTACATTTGTAGAAGCCGTGGCTAAAACAACAACCAAAATGTCATTTCCAACAACATTTTGGAGTGAC
AATTTTATTTTGTCATGGTTAATTCACGATGAAATTTTACACGTTTAAAACTTTTGCAATTTTTGTCACAAAAAATTCAG
AATTTTCCGAAATATTTTTCAATTTTTTTTTAATTTTACTGTTCACCCGAGCTCATTTGAGCTCGGGAGAAGAGTACTTT
CGCTCAACTGTGGGCTTCACAGGGCCCAGAAGCCAGAAGAAAGAGG-AACGGTCCAGTCCTCAACTCATCAACAAGATCG
GGGAGGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGC-AAAGATGAACGGCGGCGGCAGGAAGTTCGGCGGCGGGCGGCT
GCCGACGGGGACCCCGTCGCTGGCCTGGTCATCGGTGGTCGTGGTCGCCTCCCTCCTCGCGGGGGCCTCCGTCGTCCACA
ACGTCTACAAGCCTGACATGGTACAGCAG----TCT------------CTGCCACCCACCCGTACATTGCACCATGCCCG
CAACCTGTTCGACGCAATGCACGCTCACGGCTCGCCACTCTTTCTTTTCTTCTGGTCCACCCGCAGACCATTCCGCCGGT
GGAGAGTGACGACGGAGGAGGCGGCGGCATTGACGGCAAGCAGAGCTGAGCTGGT---------------------GACG
GATTTTGTTCCTTCGCAAGAACCATGTTCTGTGTTGCACTGCCATCTGCGTGCCCCCAACCCTTTCTGTCAGCGTATCTC
GTTATGCTTACCAGAGGAGCACAGCACTCTGCTGCTCGTTACCCACTGGAATCAGACTAACATTGTATGATTTACGCATC
TTATTCAAAGGGATT--------------------------------------------------------------TAC
TTTTTGCAGGAGATATTATGTTCTTATTTAACACGACATTTGATCCCAAACCTCCGGGGCTCTTTCACACTTGACATTCT
CATCGATGTCATATGCTGGAATTTGGTTTATCCTTAAATCTCCAGGAGCCTGTACCTCTAAACGGTCAGATAGTGAAGGG
ACCAAGGCTACTGGAGTGGTGTTAGATTCA--------------------------------------------------
---------------------------------TACCTTTGAGAGCCAATGTGGGCTGTTGGATGAGCAGAAAAAAAAAA
AGCACGGAGCCACTAGGCAAGAGCCTCTCGTAGAATGACCCTGGCACAACACCAGTTG----------------------
------------CAGCAACATGCTTCTCGATTTGCCGGAGTGCAACCAGGTTCTTCACGGCCGCGTTGAAGTCATTGAAT
GGGAGATCATTAAGGAGTAGACTGACTTCCGGAGGTGGCTGTTGCAACTGAAGAAAGTGATTGTGGGTGGCCTCGAGCGT
GACCGACACCAGTGCTATCGCGCTTGGG-CCAGAGGAGCAACCCAAGTCCGCAATCGCCATCTTTCCATGCGACAACGTG
CTTGTGTTGCTGCATACAGAGGGAGTACATCAACGATCGCCACTTCTATCAGGGCCTTCATCCTATTCTGCTCAGGACTC
TGCAGTCGACCTGTACTTC-TTCAGAAATCTAGTTAAAAGTTCCCCTATACTGGTCTTGT-TTTCTTTATGTTGTTAGTT
TAGCAAACTCCAGTCAGTAATACAAGATATATC----ATGAACAAATTCTTGATGTGACAATCTTTGGAAGCCAAGTTTC
TGGAGAGGAGATGATACCTGGAAAATGGATTTGCGAGCATAGCTAGTTTCTCCTTC
>chr3B_890
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---------GTGGGCTTCACACGGCCCAGAAGCCAGAAGAAAGAGGGAACGGTCCAGTCCTCAACAAGATCGGCG-----
-------------GAGAGAGAGAGAGAGAGAGAGAGC-AAAGATGAAGGGCGGCGGCAAGAAGTTCGGCGGCGGGCGGCT
GCCGACGGGGACCCCGTCGCTGGCCTGGTCATCGGTGGTCGTGGTGGCCTCCCTCCTCGCAGGGGCCTCCGTCGTCCACA
ACGTCTACAAGCCCGACATGGTATGGTACACTAGTCTCGTCTCTGCCACTGCCACCCACCCATCCGTTGCCCCATGCGCG
CAACCTGTTCGACGCAATGCACGCTCACGGCTCACCGCACTTTCTTTTCTTCTGACCCACCCGCAGACCATTCCGCCGGT
AGAGAGTGCTGACGGCGGACGCGGCGGCAATGACGGCAAGCAGAACTGAGCTGGTTTCACGGAGAGCGCCGGTGGAGACG
GATTCTGTTCCTTTGCAAGAACCATGTTCTGCATTGCACTGCCATCTGCGTGCCTCCAACCGTTTCTGGCAGCGCATCTT
GTTGTGCTTACCAGAGGAGCACAGCATTCTGCTGCTCGTTACCCATTGGAATCAAACTAACATTGTATGATTTACGTATC
TTATTCAAAGGGATTTAGTGTTTGCAGGACACACTATGTTCTTGTTTACTTTTTGCAGGAGATATTATGTTCCTGTTTAC
TTTTTGCAGGAGATATTATGTGCTTATTTAACACGAAATTCGATCCCAAACCTCCGGGGCTCTTTCACACCTGACACTCT
CATCGATGTCATATGCTGGAATTTGGTTTATCCTTCAAATTCCAGGAGCCTGTACCTCTAAACGGTCGGATAGTGAAGGG
ACCAAGGCTACTGGAGTGGTGTCAGATTCA--------------------------------------------------
---------------------------------TACCTTTGAGAGCCAATGGAGGCTGTTGGATGAACAGAAAAAATAAA
TGTGCGGAGCAACTAGGGAAGAGCCTCTCGTAGAATGATCCTGGCACAAGACCAGTTACAACAACAGGCTCAGCGATTTG
CCGGAGTGCAACCAACAACAGGCTCGTCGATTTGCCGGAGTGCAACCAGGCTCTCCAGCACCGCGTTGAAGTCATTGTAT
GGGAGATCATTAAGGAGTAGACTGACTTCCAGAGGTGGCTGTTGCAACTGAAGAAAGTGACTGCAGGTGGCCCAGAGCAC
GACGAACACG-GTGATACTGTGTTTGGGCCCAGCAGAGCAGCCCAAGTCCGCGATCGCCATCTTTCCACGCGACAAGGTG
CTTCTGTTTCTGCATAC---------------------------------------------------------------
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>chr3A_890
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---------GTGGGCTTCACACGGCCCAGAAGCCAGAAGCAAGAGG-AACGGTTCAGTCCTCATCGAGATCGGC------
--------------AGAGAGAGAGAGAGAGAGAGAGCAAAAGATGAACGGCGGCGGCAGGAAGTTCGGCGGTGGGCGGCC
GCCGACGGGGACTCCGTCGCTGGCCTGGTCATCGGTGGTCGTGGTCGTCTCCCTCCTCGCGGGGGCCTCCGTCGTCCACA
ACGTCTACAAGCCCGACATGGTACGTTAGTCTCTCT------------CTGCCACCCACCCGTACGTTGCCCCATGCCCA
CAACGTGTTCGACGCAATGCACGCTCATGGCTCAGCACTCTTTCTTTTCTTCCGATCCACCCGCAGACCATTCCGCCGGT
GG------------GAGGAGGTGGCGGTGATGACGGCAAGCAGAGTTGAGCTGGTTTCGTGGAGAGGGATCGCGGAGACG
GATTCTGTTCCTTCGCAAGAACCATGTTCTGCG-----------TCTGGGTGCCCCCAACCGTTTCTGTC----------
-----------------AGCACAGCACTCTGCTGCTCGT-ACCCACTCGAATCAAACTAACATTGTATGATTTATGTATG
TTATTCAAAGGGATT--------------------------------------------------------------TAC
TTCTTGCAGGAGATATTATGTTCTTATTTGACATGACATTCAATCCCA----------GCTCTTTTACATCTGACATTCT
CATCGATGTCATATGCTGGAATTTGGTTTATTCTTAAATCTCCAGGAGCTTGTACCTCTAAACCGT----TAGTGAAGGC
ACCAAGGCTACTGGAGTGGTGTCAGATTCATACTCCTTCCGTTCCAAAATAGATGACCCAACTTTATACTAACTTAGTAT
GAAGTTGGGTCATCTATTTTGAAACGGAGGGAGTACCTTTGAGAGCCAGTGTAGGCGGTAGGGTGAGCAGAAA-AAGAAA
TGCACGGGACCACTAGGGAAGAGCCTCTCGTAGA----------CACAACACCAGTTA----------------------
------------CAACAACATGCTTGCTGATTCGCATGAACGCAAACAGGCTCTTCACCACTGCGTTCAAGTCATTGTAT
GGGAGATCATTAAGGACTAGACTGACTTCAGGAGGTGGCTGTTGCAACTGAAGAAAGTGACTGCAGGTGTCCTCAAGCG-
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>chr3B_1560
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------------------------------------------------------------TCTTTCACGCCTGACATTCT
CATCGATATCATATGCAGGGATTTGGCTTATCCTTAAAGCTTCAGGAGCCTGTACGTCCAAACGATCAGATAGTGAAGGG
ACAAATGC-ACTACTGTAGTGTAAAATTCA--------------------------------------------------
---------------------------------TACCTTTGAGAGCCAATGAAGGCTGTTGGATGAAGAGAAA-AG---A
TGCACGGAGCCACTAGGGAAGAGCCTCTCGTAGAATGACCCTGGTACAGCACCAGCTG----------------------
------------CAACAACAGGCTCGTTGATTTGCCGGAGAGCAACCTGGCTCTTCACCACTACGTTGAAGTCATTGTAT
GGGAGATCATTAAGGAGTAGACTGACTTCCGGAGGTGTCTGTCGCAACTGAAGAAAGTGGTTGCGGGTGGCCTCGAGGGC
GATCGACACCAGTGCTACCGCGTTTGGG-CCAGAGGAGCAGCCCAAGTCTGCGATCACCATCTTTCCGCACAACAAGGTG
CTTGTGTTGCTGCATACA-----------TCAACAATCGCAGCTTCCATCAGGGGCTTCATCCTGTTCTGCTCAGCACTC
TGCAGTGGACTTGTATTTTTTTCAGAAATCTTCTTTAATCATTCCCAGAATTGTTCTTATTTTTCTTTGTGTTCTTAATT
TAGTTT-------TCAGCAGTACAATATATATATGGTATGAAGAAATTCCTGACGAGCCAGTCTTCAGAAGCCAAGTTTC
AGGAGA--------------------------------------------------
>SNPs
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSS------------S-------------------------------------------SSSSSSSSSSSSSSS
SSSSSSSSSSSSS-------------------------------------------------------------------
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-------------S----------S-S--------------------------------------S----S---------
---------------------------------S--------------------S-------------------------
--------SS-------------------S--------------------------------------------------
----S--------------------------S-----------------------------S------------S----S
---S--------------------------------------------------S---------------------S---
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----------------------------------------S-----------------------------S---------
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----------------------S---------------------------------------------------------
----------------------------------------------------S-----------------------S---
S----------------S--------------------------------------------------------------
--------------S----------S------------------------S-------SS-----------------S--
---------------------------------------------------------------S---------------S
-----------------S----S-----------------S-----------S---------------S-------S---
------------------SSSSSSSSSSS-----S-----SS----S-------S---------S----------S----
------S---S----S--S------------SS--S--SSS-S---SSS-S--S----S---------S----S---S--
---SSSSSSSSSS----S-S-----S------S---------S------S---S-S-S--S----SS-------------
S-----SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
>forward_116
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----------------TTGAATGGATGGGGGCCTTC--------------------------------------------
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>reverse_2060
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-----------------------------------------------------------GCCGCGTTGAAGTCATTGAA-
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