>input_sequence_77301
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-----------------------------------------------------ATGATGAGGCATTGGCAAGCTCCCTCC
TGTCTCCTCGTGCTCCTCTTCGTCCTCGTCTCCTCCGAGGCTTCCACTCTAGAGGACACATGCAAGTCCGTCGGCGCAAG
CAAGAAGGACATCGGCTACGACTACTGCATCAAGTTCTTCCAGGGCGACAGCGCCAGCGCCACCGCGGACAGGCACGGCC
TCGTCGTCATCGCCACTAAGATCACCCGAGGAGAGGCCGCGAACACCCGCAAGCGCATCGATGCCCTCAAGGCCTCGGTG
ACGGACAAGAAGGTCAGCGGGCGCCTCTCCGACTGCCGGATGCACTACACGGCGGCGCTGAAATGGCTCGAAGCCGCCGC
GGAGGGCGTCAAGTCGGGTAATTTGCAGGACGCGAAGACGAACCTCACGGCCGTGATATTGGGCACGGACACCTGCGAGG
AAAGGTTCCGCGAGCTGGGCGTCGTGTCGCCGCTGGCCGCCGAGGACGCTGAGTTCTCCAAGGGCTGCTCCATCGCGCTC
GCCATAACCACCATGTTGTAG-----------------------------------------------------------
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>chr2A_1_TraesCS2A01G452800
CTTTATATATTTGATATTGTAGATATAAATAGTTATCTCTCAAAACTTGGTGGTGGG-GCAAGGCAACCCGGGCGGAGGT
AGGGCTGGCGACAGGAAGTCTTGGGCTGTTGAGGGTGGATGTTAGTATGGCGCCGCAGCTGGCGGCAGCGGCAACAACAT
CATGATGATCGTGGCCCAGCGGAGGTTGGGCTCTTCATGTCGTCGGGACTGGAGAGGACATGGTCCTCGCTTTTTGCGAC
ACAAAAAGATGTCGAAATGCACATGGCAACCCTGACTAGGTCGGCCCAATGGCGCCGGAGCGGGAATTGTAGCGAAAAGA
TTACATATTTTGGAAAGTCAAATTTTCTCTTCAAAATTTTTGGATTTTTTAAAAATCAGGATATTCATCCAAAATTTGGA
TTTTATGGAAAAGGAGAACATTTTTTTGGAAAACATGATCAT-------GTTTTGAATTTCCCAAACTATTATGAAACAC
--TTTTTTTGAATTTGCAAACAAATTTTAAAACTTAGAACACTTTTCAAAATTCAAACCAATATTCGAGAACATGAACAT
TTTTTTGAAATATCAAATAATTTCTGAAAAATTCTGAAAAGGGAAAC---------------------------------
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----------ATAATTACTCCCTCCAATCCATATTAATTCTTAGTGATA-AGTACAACTTTATACTAAATGAGCAACAAT
TAACATGGATTGGAGACAATAATGATCCATGTTAATTCTGAGTGATTCAGTACAACTCTA------TACTAAATGAGCAA
CAACTAACATGGATCGGAGAGAGTAATGTTCCATATTAATTCTCGGTGATTTAATACAACTTTGGACTAAATCGGCGATA
ATTAATATGGATCGGGGGAGTAATTTATTAATAGCAGAACATAATATA-TTTGCAATACAT-------------------
--------------------------------------------------ACCTTTTTCATTGGTTTGTTCAAATT----
GGAAGATTGATATACTCATGGGGTATTTTTGTATCA---ATCATGGCTATATATATGCACCATCTACAAACGATTTGTTA
------------TAGTCGTGCC------------------------AAAAACCATGATGAGGCATTGGCAAGCTCCCTCC
TGTCTCCTCGTGCTCCTCTTCGTCCTCGTCTCCTCCGAGGCTTCCACTCTAGAGGACACATGCAAGTCCGTCGGCGCAAG
CAAGAAGGACATCGGCTACGACTACTGCATCAAGTTCTTCCAGGGCGACAGCGCCAGCGCCACCGCGGACAGGCACGGCC
TCGTCGTCATCGCCACTAAGATCACCCGAGGAGAGGCCGCGAACACCCGCAAGCGCATCGATGCCCTCAAGGCCTCGGTG
ACGGACAAGAAGGTCAGCGGGCGCCTCTCCGACTGCCGGATGCACTACACGGCGGCGCTGAAATGGCTCGAAGCCGCCGC
GGAGGGCGTCAAGTCGGGTAATTTGCAGGACGCGAAGACGAACCTCACGGCCGTGATATTGGGCACGGACACCTGCGAGG
AAAGGTTCCGCGAGCTGGGCGTCGTGTCGCCGCTGGCCGCCGAGGACGCTGAGTTCTCCAAGGGCTGCTCCATCGCGCTC
GCCATAACCACCATGTTGTAGCT-AACG----------------------TGGT-AACTGCTCTAGCTGCG--AGTCCAT
GATCATTTGGATCGACCAAATAAACTCTTGGAACCTGCAATTTCAAATCAGTGAACTTTGCAAATATGTTTGGACGGAAA
TTTTGTTTCCTTATAGAATTGCCTTGAATTATTATTTTTCTGGAGCTTATAGAATTAATTTTATGATTTCTTATTTTTCT
GG-AGCTTACAGAATAGAAATACTCCATCTGTCCATATTTACATGCATGGCGCACGGTTTTATGTACGATGGCGCTGATG
GAGGAAATGGATGTGCCCCATTAATGTTCATCCTTATTTAGGAGATCTGATGCCACAAGATTATGTATAACCAGACTCCC
ATATCGTTCCTAAATGCTCGAGCAGGTTGCCCGGTCATTGACCGGACGAAAAAAATAGTATCAAACCAGCATTGACCGGA
CGAAAAAAATAGTATCAAACCAGGTTTCCACCAGCCCAAACGCCGGGCCCGCACCAATTTTTTTATTCTTTTTTGGGTGG
TGGAGGGGGGGGGGGTATGGGGACGTCCGGATGT----GCAACATCAGAATGATCGCTAGGGCCCGCGCGCCCATATTCA
CTCCCA----CCTTGCCGGACCAGCCCTCTTCTCTTCTTTGTTTGTCCTCGTCCATACAGCCGTAATCGGTCAAGGTCAC
CACTACCGGACGCCGCCCCATGGTCATTACTTCTAGATCATCGATGAATTCGTCATGGAATGATGGCTATGAGTGGAAAA
ATGATTTAACTTAAAAACTTTCTAAATGTGAACGGCCATCAACGCTCACTTTTGTGAAGTTGTGAAGAGTATGAACTATG
ACTCGGCTGTTCATACCCCTCACAAAGGGGGCATTGATGGTCATACTGAGAGAGAAGATTACTGCTTTTGCATGATGCGG
CTATCTAAGCCGGCCGCATCGCTCCTCGTGCAGCGAGGTGACACTAAACCCCCAACCCCGCCGGACCTGAAATTTTCTAT
TTGTGTGCACTGTTTG
>chr2B_1
CTTCATATATTTGGTATTGTAGATATAAATAGTTATCTCTCAAAACTTGGTGGTGGGCGCGAGGCAGCCCGGACGGAGGT
AGGGCTGGCGACTCGAAGTCTTGGGCAGTTGAGGGTGGATGTTAGTATAGCGCCGCAGCAGGCGGCGGTGGCAACAACAT
CATGATGATTGTGGCCCAACGGAGGTTGGGCTCTTCATGTCGTCGGCACTCGAGAGGACATGGTCCTCGCTTTTTGCGAC
ACAAAAAGATGCTGAAATGCACATGGCAACCCCGACTAGATCGACCCAATGGCGCCGGAGCGGGAATTGTAGCGAAAAGA
TGACATATTTTGGAAAGTCAAACTTTTTCTTCAA--TTTTTTGATTTTTGAGAAATCAAGATATTTATCCAAATTTTGGA
TTTTATGGAAAAGGAGAACATTTTTTTGGAAAACATTATCAT-------GTTTTGAATTTCCCAAACTATTTTGAAACAC
GTTTTTTCTTAATTTGCAAACAAATTTTAAAACTTACAACATTTTTCAAAATTCAAACCAATATTCGAGAACACGACA--
TTTTTTGAAATATCAAATAATTTCTGAAAA--------------------------------------------------
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>chr2B_284
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--------------------------------------------CCCAATGGCGCCGGAGCGGGAATTGTAGCGAAAAGA
TGACATATTTTGGAAAGTCAAACTTTTTCTTCAA--ATTTTTGATTTTTCAAAAATCAAGATATTTATCCAAATTTTGGA
TTTTATGGAAAAGGGGAACATTTTTTTGGAAAACATGATCATGTTTTGAGTTTTGAATTTCCCAAACTATTTTGAAACAC
GTTTTTTCTTAATTTGCAAACAAATTTTAAAACTTAGAACATTTTTCAAAATTCAAACCAATATTCAAGAACACGACA--
TTTTTTGAAATATCAAATAATTTCTGAAAAGGGAAACATTTTGAGATAGAAAAAAAGAAGCTGAAGAAAAATCAAAAAAA
GCAGAAAAATAAAATAAAAACAATAGAAATCAGACGGGAACTTCCAGAAGGATCCCAAAACCGGGGAACCAGTGTACAGT
TCAATGGCCCTGCCTGTTTCCGTTGCTCGCTCGGCATTCGGAATGCGAGAAATAGGAAATGCCGCAACGCCCTTCCCCTC
CCAAATTTTCTTTTTGAGTTGGGCATCCCAATATTTTTGGCATAAACACCCCCAAGTTTTATTAGGAATAACTTGAGTCC
AAAAAGGAATACAATTACTCCCTTCGATCCATATTAATTCTGATTGATTCAGTACAACTTTATATTAAATGAGCAACAAT
TAACATGGATCGAT------------------------------------------------------------------
------------------GAAAGTAATGTTCCATATTAATTCTCGGTGATTTAATACAACTTTGGACTAAATCGGCGACA
ATTATTATGGATCGGGGGAGTAATTTATTAATAGCAAAACATAATATTTTTTGCAATACAT-------------------
--------------------------------------------------ACCTTTTTCATTGGTTTGTTCAAATTAATT
GGAAGATTGATATACTCATGAGGTATTTTTGTATCA---ATCATGGCTATATATATGCACCATCCGCATATGATTTGTTA
------------TAAAAAACAAGACATATACGACAATCGTGCCGAAAAAAACCATGATGAGGCATTGGCAAGCTCCCTCC
TGTCTCCTCGTCCTCCTCTTCGCCCTCGTTTCCTCCGAGGCTTCCACTCTAGACGATACATGCAGGTCCATCGGCGCAAG
CAAGAAGGACATCGGCTACGACTACTGCATCAAGTTCTTCCAGGCCGACAACGCCAGTGCGACCGCGGACAGGCGCGGCC
TTGTCGTCATCGCCACTAAGATCACCCGAGAAGAGGCCGCGAACATCCGGAAGCGGATCGATGCCCTCAAGGCCTCGGGG
ACGGACAAGAAGGTCAGCGGGCGCCTCTCCGACTGCCGCATGCACTACACGAACGCGCTGAAATGGCTCGAAGCCGCGGC
GGAGGGCGTCAAGTCGGGTAATTTGCAGAAGGCGAAGATGAACCTCACAGGCGTGATATTGGGCACCGACACCTGCGAGG
AAAGGTTCCGCGAGCTGGGTGTCGTGTCGCCGCTGGCCGCCGAGGACGCCGAGTTCTCCAAGGGCTGCTCTATCGCTCTC
GCCATAACGACCATGTTGTAGCT-AGCTAGCCGCCGAGGATGTGTGAACCTGGT-AACAGCTCTGGCTTCG--AGTCCAT
GATCATTTGGATCGACC-AATAAACTCTTGGAACCTGCAATTCCAGATCAGTGAACTTTGCAAGTATGTTTGGAGGAAAA
TCCTGTTTTCTTATAGAA-----TTGAATTATTATC------GAGCTTATAGAATTAATTTTGTGATTTCCTTTTTTTTC
TAAAGCTTATAGAATGGAAATACTCCATCTGTCCATGTTTACATGCA---------------------------------
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>chr2D_587
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AAAAAGGAATATAATTACTCCCTCCAATCCATATTAATTCTTAGTGATA-AGTACAACTTTATACTAAATGAGCAACAAT
TAACATGGATTGGAGACAATAATGATCCATATTAATTCTGAGTGATTCGGTAGTACAACTTTATACTACTAAATGAGCAG
CAATTAACATGGATCGGAGAGAGTAACAATCCATATTAATTCTCGGTGATTAATTACAACTTTGGACTAAATCGGCAACA
ATTAATATGGATCAATGGAGTAATTTATTAATAGCAAAATACAATATTTTTTTGGAATAAACTGCTGAAAACAAAAAGAT
AACGTTGGAAAAGGAAGTAATTGGCGGCAAAAAATTTTTTTTGAGGGAAAACCTTTTTCATGGGTTTGTTCAG----ATT
GGAAGATTGATATACTCATAAGGTATTATCGCATTTACGATCACGGCTATATATATGCACCAGATTTTTGTTATCAAACA
ACACATATATGGTAGTCGTGCC------------------------AAAAACCATGATGCGGCATTGGCAAGCTCCCTCC
TGTCTCCTCGTCCTCCTCTTGGTCCTCGTCTCCTCCGACGCTTCCACTCTAGACGACACATGCAAGTCCGTCGCGGCAAG
CAAGAAGGACATCGGCTACGACTACTGCATCAAGTTCTTCCAGGGCGACAGCGCCAGCGCCACCGCGGACAGGCGCGGCC
TCGTCGTCATCGCCACGAAGATGACCCGAGCAGAGGCCGCGAACATCCGCAAGCGCATCGATGCCCTCAAGGCCTCGGTG
ACGGACAAGAAGGTCAGCGGGCGCCTCTCCGACTGCCGCATGCACTACACGGCGGCGCTGAAATGGCTCGAAGCCGCGGC
GGAGGGCGTCAAGTCGGGTAATTTGCAGGACGCGAAGACGAACCTCACGGGCGTGATATTGGGCACCGACACCTGCGAGG
AAAGGTTCCGCGAGCTGGGCGTCGTGTCGCCGCTGGCCGCCGAGGACGCCGAGTTCTCCAAGGGCTGCTCCATCGCTCTC
GCCATAACGACCATGTTGTAGCTAAGCTAGCCGCCGAGGATGTGTGAATCTGGCTAATAGCTATGAGTCCA-------AT
GATCATTTGGATCCACC-AATAAACTCTTGGAACCTGCAATTTCAGATC--------TTGCAAGTATGTTTGGACGGAAT
TTTTGTTTTCTTATAGAA-----TTGAATTACTATTTCTCTGGAGCTTATAGAATTAATTTTGTGATTTCCTTTTTTTGT
AA-AGCCTATTGAATGGAAATACTCCATCTGTCCATATTTACATGCATGGCGCACTGTCTGC-GTACGATCGCGCTAATG
GAGGAAATGGATGTGGCCCGTTAATGTTCATCCTTCTTTAGGAGATCTGATGCCATAAGAGTATCTACAACCAGACCCCC
GTATCGGCCCCAAATGCTCGAGCAGGCTGCGCGGTCACTAACCAGAGGAGAAAAATAGTATCCAACCGAGTTTCCACA--
-----------------------------ACCGGCCCAAACGCCTGACCCGCATCAAATCT-------------------
-------GGGGCGAATATGGGGACGCCCGGCCGTGCCTGCAACATCGGACTGACCGCTAGGCCCGTGCCAATTCGCGCAT
ATCCGCCCCTCCTTGCCAGACCAGCCCTCTTCTCTTCTTTGTTTGTCCTCGTTTGTACAGTCGCAAACGGTCAAGGTCAG
CACCATCGGACGCCGCCCCGTGGTCATTACTTCTAGATCATCGATGAATTCACCGTGGAATGATGGCTATGAGTGGGAAA
ATGATTTAACTTAAAAAGTTTCTTAGTGCGAAGGGCAATCAATGTTGGCTC---------TGTGAAGAATATGAACTGTG
ACTCGGCTGTTCATACCCTTCACG--------------------------------------------------------
------------------TCGCTCCTCGTGTGGCGAGGTGAGACTAAACCCCCAACCCCGCCGGACCTGAAATTTTGTAT
TTGTGTGCACTGTTTG
>chr3A_984
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------------TAGTCGTGGC------------------------ACAAACC---ATGAGGCACCGTCAAGCTCTCTCG
TGTCTCACCCTCCTCTTCTTCATCCTCGTCTCATCCAGCGCTTCCACTCTAGATGACACATGCAAGTCCGTCGCCGCAAG
AAACAAGTACATCTCCTACAACTACTGCATCTTGTTCTTCCAAGCCAACAACACCAACCCCACTGCGGACAAGCGCGGCC
TCGTCGTCATCGCCATAAAGATCACCCAAGTAGAGGCTGCGAACACCCGCAAGCGCATCGATGCCCTAATGGCCTCGGGG
ACGGACAAGAAGGTCAACGGGTGCCTCTTCGAGTGTCACGTGCACTACACGATCACACTGAACTGTCTTGAAGCCGCGGT
GAAGGGCATCGAGTCAGGTAATTTGCAGGACACGGAGGTGACCCTCAGAGGAGTGATATCGCGCATCGACACCTGCGAGG
AAGGGTTCCGCAAGCTAGGCATCAAGTCGCTTCTGGCCGCCGAGGATGCCACGTTCACTGCAGGCTGCTCCATCGCTCTC
ACTATAACGAGCATGTTGTAACT-CGCTAGCCGTTGAGGATGCGTGAATCTGGCCAACTGTTCTAGCTATACTAGTCCAT
GATCATCTGGATCGACC-AATAAACTCTTCAAACCTGCAATTTCATATCAGTGAACTTTGCAAGTACGTTTGGATGGAAT
TTTCTTTT-CTTATAAAA-----TTAAATTATTATTTTTGTGGGGCTTATAGAATCGATTTT------------------
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>SNPs
---S---------S----------------------------------------------S-----S-----S-------
------------SS------------S---------------------S----------S------S-S-----------
---------S--------S---------------------------S---S-----------------------------
-----------SS-------------------S------S---S------------------------------------
-S--------------------S---S-------SS-----S-------S--------S------S-------S------
-----------------------------------------------------------------------S--------
-------S-S-------------------------------S-------------------------------S--SSSS
------------------------------SSSSSSS-SSSS--S-S---------------------------------
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------------------------------S-----------------S---SS--SSSS-------------------S
---S--------------------------------------------------------------------------S-
------------------------------------S----------S--------------------------------
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--------------------S--------------------------------------------S--S-S---------
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-----------S-----------------------------------------S--------------------------
--------------------------------------------------------------------------S-----
------------------------------S-------------------------------------------------
--------------------------------------S--------------------------------------S--
--------------------------------------------------S---------------S-------------
-------------------------------------------------S--------------------------S---
--------S----------------S-S----------------------------------------S-----------
-----------------S---------------------------S-----------------S----------------
--------S---------SSSSS---------------------------------------S-------S-S-----S-
SS-------S-----S---------------------------------------S--S-SSS-------S-----S---
---------------S---S---------------S-------------------S----S---S--S--------S---
S-----SS--S---------------S---S------S-S---S--S--S------------S----SSSS--SSS-SSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSS---S-----------S-S------S---S-S-SSSSSSSSSSSSSSSSSSS
SSSSSSS----S-SS----------S----SS--------------S--S---S-------S--SSSS-SSSSSSSSSSS
S---SS-----------S----------------------------------SSS-----S--S--S------------S
---S-S-------------S-------------------------------SS-S---------------------S---
-----------------S-----S-S--S---S---S-----S-S-SS--SSSSSSSSSS--------S--------S--
------------------S----SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSS------------SS---------S----------------------------------S---
----------------
>forward_179
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-------------------------------------------------------------------------------T
CATGATGATCGTGGCCCAG-------------------------------------------------------------
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>reverse_2555
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--------------------------------------------------------------------------TATTCA
CTCCCACCTTGCCG------------------------------------------------------------------
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