>input_sequence_72325
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----------------------------------------AGATTGCAAAAAAATTACCATCGGTAGATTTTTATAGCGG
TTCTGAAAAGTGGGGGCAAAATCGGGTCTACAACGCGAATGTGGTTTTGCAATTCACATGGTCAACAAGCGGCGTCAAGG
TTCTGTAC-TCTTCAGTGCGCAGCCCTA-GTGTGATTCCATCTCTGCAATCTGCGCGGCGCAAGCGACGTCGAAGACATC
GACATGGACGCACCGAGGGGTACCCCGCCGGGGCGGGCACGGGCACCGCCACCCGGATGGATCGGCGATTCTGGGTCCGG
GCAGGGCTCCGGACCCGACGGCTCCTGGAGGTACGGCTGGGAGTGGGCTTCAGGGCCTGGAGGCGGCTGGGGTTACGGCC
ACAGCTCAGAGCAGAGCCCCGGCGGCACCGCGTTTGGGTTCGGCTACGGCAGCGGCGGTGGC---GGAGGAGGAGGCGGA
GGGGGGAGCGGACGTGGAGGCTTCGGCTTCGGCAGGCTCGGCGGCCACTCTGGCGGGTTCGGCTGGGGTGTCGGGCCCGG
CGGCCATGCTG------------------------GCGGCTGGGGCAGCGGGAGCGGCGGCTGGGGAGCAGGCGGTGGGG
CCTTTGGAGGCGACCACGGCGGCTGGGACGCGCGCGCAGGGTTCCGCGGCGGGAGCCAACGGCCACCTCCCGGAGGACGC
GGCGGCGGCAATTGA-----------------------------------------------------------------
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>chr2A_1_TraesCS2A01G389700
ATGTTGGACCGCGGAGCGGCGTGTTCGCCATGGCTTATCTAACGACCCTGCTTGCATCCTCTGCGACCAAGAGGCCGAGT
CCATCGATCACCTGCTAGTGGGCTGCGTGTTCTCCCGCATCATTTGGCACGAAATTCTCTCCTGGTGTCGCCCTATCGCC
CCACCGTTGGACGACTCCACAAGCTTCTTCGCCTGGTGGTCCGAGGCGGCTGCGGCATCCCCTGGTTGCTTGAGAAAGGG
GCTCAACTCCATCATCGTGTTGTCTGCATGTGCCATTTGGAAGCATCACAATGCAGCTATCTTCAACGGCCAATGCCCCT
CCACGGGAGATCTAACCAAGGCCATCAAGGACGATGCCCGGCTATGGGCCAAGGCGGGCACCACGGGACTAGCTAGTATT
ATTCCTGTAACCTAGGATATATGTGTTGAGGCTGAGCATCCTCCTCCCCCTGCTCACTTTGCACCATCACTGACGCCGGC
TCGTGCACGTTTGTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAATCAATGAAATGA
TACGCTGCTAAGCATATTTACCTAAAAAAAGAGGAGGGTTGGGTGAAGGCGATACAACGAGCAACTCTCGTTTAATAGTA
GAGATTGCGAAAAAAATTACCCCATATCGATAGTTTTTTTGCGGTTCCGAGAAGTGATAGCAAAACCAACTTCATTTTGA
TAACATATTAATAGAGATTGCATTACCTCAAAAAAAATAGAGATTGCAAAAAAATTACCATCGGTAGATTTTTATAGCGG
TTCTGAAAAGTGGGGGCAAAATCGGGTCTACAACGCGAATGTGGTTTTGCAATTCACATGGTCAACAAGCGGCGTCAAGG
TTCTGTAC-TCTTCAGTGCGCAGCCCTA-GTGTGATTCCATCTCTGCAATCTGCGCGGCGCAAGCGACGTCGAAGACATC
GACATGGACGCACCGAGGGGTACCCCGCCGGGGCGGGCACGGGCACCGCCACCCGGATGGATCGGCGATTCTGGGTCCGG
GCAGGGCTCCGGACCCGACGGCTCCTGGAGGTACGGCTGGGAGTGGGCTTCAGGGCCTGGAGGCGGCTGGGGTTACGGCC
ACAGCTCAGAGCAGAGCCCCGGCGGCACCGCGTTTGGGTTCGGCTACGGCAGCGGCGGTGGC---GGAGGAGGAGGCGGA
GGGGGGAGCGGACGTGGAGGCTTCGGCTTCGGCAGGCTCGGCGGCCACTCTGGCGGGTTCGGCTGGGGTGTCGGGCCCGG
CGGCCATGCTG------------------------GCGGCTGGGGCAGCGGGAGCGGCGGCTGGGGAGCAGGCGGTGGGG
CCTTTGGAGGCGACCACGGCGGCTGGGACGCGCGCGCAGGGTTCCGCGGCGGGAGCCAACGGCCACCTCCCGGAGGACGC
GGCGGCGGCAATTGACTTGGGGTCTGTATGCTGCGGCGTGGTGAGATCACTGCCAGAGTATAGCAGGAGCAGTTGATCTA
GGTC--------TGGGAAGATAACGTGGTTTATTCGACTCTGTCTATCTGCGTGTGTTAAA-TTTCAGTGTGAGCAGTGA
TGATCGTAGAACGATCTGGATCTTGACTCTT---GTAATATTGTGGCCATCCTTGTATGTTTGAGTGTTCCATTTCAGTA
TGTAAGAAATGGTTATGTGTACATAATCAACATGTGCTGCTGGTGTGTGATGCTAGATCATGACTGAACATTCATGCAGC
TTCATGGCAAAATCCCAGAAAGAAAAACGG---AACAAACGGGCTCATTCTTCT-------------------------A
GGTTACGGGTTCAAGTTTTACAAAGAAATGCCAGGAGAAACAACTACAGAAAGCCAAGAGTTTCCCCTGGTAC-------
-------------------------CAGAGATCCTACGCTCTTTGCGGATCAACCATAGAAGACAAACTTGCATACATTC
TGTGCAACTAGTAGTAGCTCAGCACTCTGTTGAGCCAAGCTCTCAATCAACACCCGGATTTTTACCTTGACAACGTCGGA
CTCAGAAACACAAATTATCAGAAGTTGCGTCCTATGCTGAACACGACTCCATGTTGCGCTGCTGCACGAAAATCTTCC--
------ATGATCTCAAGAGGCTGAATGATGA-------------GGCTTCTTCTAGCCTTCGACCGTTGCTCTACATCTT
TACTAC---ACCCTTCGTCCCTAAACGTAGGATGTTTTTGCAGCTCAATTTGAACTGCCAAAACATCTTACATTTAGAAC
CATGGCCATGGACAAGATGTGGAGCAGCTTGCCCATGTCCAGCGCCTCGTGGCCGGCCGCCGCGTCCGAGATCCGTGCCA
TGGCACGAGCCATCTCTGACTCCCGGCCTCGACGGAACGATCCCACCTTGTTGACCGTCAACAAGGTGGTGGTAAGGATC
TTCTTGGCCCGGCGCCACTCGTCCCCGTACGCTGTGAAGGCGACGTCGACTGGGCCGCCGAGCAGGGCGGT
>chr4D_1
ATGCTGGACCGCGGAGCGGCGAGTGCGCCATGGCCTATCTAATGACCCCGCTTGCATCCTCTGCGACCAAGAGGCTGAGT
CCATCGATCACCTGCTAGTGGGCTGCGTGTTCTCCCGCATCATTTGGCACGAAATTCTCTCCTGGTGTCGCCTTATTGCC
CCACCGTTGGACGACTCCATGAGCTTCTTCGCCTGGTGGTCCGAAGCGGCTCCGGGATCCCCTGGCTGTTTCAGAAAGGG
ACTCAACTCCATCATCGCGCTGTCTGCCTGGGCCATTTGGAAGCATCGCAATGCGGCTATCTTCGACGGCCAGCGCCCCT
CCATGGGAGACCTGACCAAGGCCATCAAGGATGATGCCCGGCTCTGGGCCAAGGCGGGCGCCATGGGACTAGCTAGCATT
ATTCCTGTAACCTAGGATATATGTGTTGAGGCTGAGCATCCTCCTCCCCCTGCTCACTTTGCACCCTCACTGACACCGGC
TCGTGCATGTCTATGAGGCTGCACCATGTTCTTCTTTGTACTCGCAACTCTCTACCCCCT--------------------
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-------------------------------------------------------------------ATCAATGAAATGA
TACGCTGCTAAGCATATTCACCAAAAAAAGA-------------------------------------------------
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>chr2D_1020
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-----------------------------------------------------------ATCGGTAGATTTTTATTGCGG
TTCTGAAAAGTGGGGGCAAAATCGGATCTACAACGCGAATGTGGTTTTGCAACTCACACCC---ACAAGCGGCGTCAAGG
TTCTACTCTTCTTCAGTGCGCAGCCCTAAGTGTGACTCCATCTCTGCAATCTGCGCTGCGCGTGCGACGTCGAAGACATC
GACATGGACGCGCCGAGGGGTACCCCGCCGGGGCGGGCACGGGCGCCGCCACCCGGATGGATCGGCGATTCTGGGTCCGG
GCAGGGCTCTGGACCCGACGGCTCCTGGAGGTACGGCTGGGAGTGGGCTTCAGGGCCTGGAGGCGGCTGGGGCTACGGCC
ACAGCTCAGAGCAGAGCCCAGGCGGCGCCGCGTTTGGGTTCGGCTACGGCAGCGGCGGTGGTGGAGGAGGAGGAGGCGGA
GGGGGGAGCGGACGTGGAGGCTTCGGGTTCGGCAGGCTCGGCGGCCACGCCGGCGGGTTCGGCTGGGGTGTCGGGCCCGG
CGGCCATGCTGGCGACTGGAGCGGCGGCCATGCTGGCGGCTGGGGCAGCGGGAGCGGCGGCTGGGGAGCAGGCGGTGGGG
CCTTTGGAGGCGGCCACGGCGGCTGGGGCGCGCGCGCAGGGTTCCGCGGCGGGAGCCAACGGCCACCGCGCGGAGGACGC
GGCGGCGGCAATTGACTTGGGGTCTGTATGCTACGGCGTGGTGAGATCACTGCTGGAGTATAGTAGGAGCAGTTGATCTG
GGTCCTCAGGTCTGGGAGGATGATGTGGTTTGTTCAACTCTGTCTATCTGCATGTGTTAAAATTTCAGTGCGAGCCGTGA
TGATCGTAGCACGATCTGGATCCTGGGTCTTGTAATGATACTGTGGATCACTTTGCATGTACAAGTGTTCAATTTCAGTA
TAACAGAAATGGTTATGTTTACATAATCAACATGTGCTGCTGGTGTGTGATGCTAGATCATGACTGAACATTCATGTAGC
TTCATGGCAAAATCACAGCAAGAAAAACGG---AGCAAACGGGCTCATTCTTCTGTTTGAGGTCACATCTGTCGTGCCCA
GGTTACAGGTTCAAGTTATACAAAGAAATACGAAGAAAA--------------------------------AC-------
-------------------------CCGAGATCCTACGCTCTTTGCTCATCAACCATAGAAGACAAACTTGCATACATTC
TGTGCAGCTGGCAGTAGCTCAGCACTCTGTTGAGCCAAGCTCTGAGTCAACACCTGGATTTTTACATTGACAACGTCGGA
CTCAGAAACACAAATTATCAGAAGGTGCATCCTATGCTGAACACGACTCCATGTTGCGCTGCTGCACGAAAATCTTCCAT
GAGATCATGATCTCAAGAGGCTGAGTGACGA-------------GGCTTCTTCTAGCCTCCGACCGTTGCTCTACGTCTT
TACTAC---ACCCTTCGTCCCTAAATGTAAGATGTTTTTGCAGTTCAATTTGAACTGCCGAAACGTCTTACATTTAGAAA
CAT-----------------------------------------------------------------------------
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>chr2B_1020
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-----------------------------------------------------------ATCGGTAGATTTTTAATGCTG
TTCCGAAAAGTGGGGGCAAAATCGGATCTACAAAACAAATGTAGTTTTACAACTCACACCC---ACAACCGGCGTCAAGG
TTCTACTCTTCTTCAGTGCGCAGCCCTAAGTGTGATTCCATCTCTGCAATCTGCGCTGCGCGTGCGACGTCGAAGACATC
GACATGGACGCACCGAGGGGTACCCCGCCGGGGCGGCCACGGGCACCGCCGCCCGGATGGATCGGCGATTCTGGGTCCGG
GCAGGGCTCCGGCCCCGACGGCTCCTGGAGGTATGGCTGGGAGTGGGCTTCAGGGCCTGGAGGCGGCTGGGGCTACGGCC
ACAGCTCAGAGCAGAGCCCAGGCAGCGCCGCGTTTGGGTTCGGCTACGGCAGCGGCAGTGGTGGTGGAGGAGGAGGCAGA
GGGGGGAGCGGACGTGGAGGCTTCGGGTTCGGCAGGTTCGGCGGCCACGCCGGCGGGTTCGGCTGGGGTGTCGGGCCCGG
CGGCCATGCT---------------------------------------------GGCGGCTGGGGAGCAGGCGGTGGGG
CCTTTGGAGGCGACCACGGCGGCTGGGGCGCGCGCGCAGGGTTCCGCGGCGGGAGCCAACGGCCACCGAGCGGAGGACGC
GGCGGCGGCAATTGACTTGGGGTCTGTATGCTACGGCGTGGTGAGATCACTGCTAGAGTATAGTAGGAGCAGTTGATCTA
GGTC--------TGGGAGGATAATGTGGTTTGTTCAACTCTATCTATCTGCGTGTGTTAAA-TTTCAGTGTGAGCAGTGA
TGATCGTAGCGCGATCTGGATCTTGACTCTT---GTAATATTGTGGCCATCCTTGTATGTTTGAGTGTTCCATTTCAGTA
TGTAAGAAATGGTTATGTGTACATAATCAACATGTGCTGCTGGTGTGCGATGCT--------------------------
-TCACGGCAAAATCCCATCAAGAAAAACGGAACAACAAACTGGCTCATTCTTCTGTGTGAGGTCACATCGGTCGTGCC-A
GGTTACAGGTTCAAGTTTTAAGAAGAAATACAAAGAAAA--------------------------------AC-------
-------------------------CTGAGATCCTACACTCTTTGCTGATCAACCATAGAAGACAAACTTGCATACATTC
TGTGCAGCTAGTAGTAGCTCAGCACTCTGTTGAGCCAAGCTCTCAGCCAACACCTGGATTTTTACCTTGACAACGTCGGA
CTCAGAAACACAAATTATCATAAGTTGCATCCTATGCTGAGCACAACT--------------TGCACGAAAATCTTCCAT
GATCTCAA---------------------GA-------------GGCTTCTTCTAGCCTCAGACCGTTGCTCTACGTCTT
TAATACACGACCCTTCGTCCTTAAATGTAAGATGTTTTTGCAGTTCAATTTGAACTACCAAAACGTCTTACATTTAGAAA
CAT-----------------------------------------------------------------------------
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>chr2A_1536
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--------------------------------------------GCAGCGGGAGCGGCGGCTGGGGAGCAGGCGGTGGGG
CCTTTGGAGGCGACCACGGTGGCTGGGGCGCGCGCGCAGGGTTCCGCGGCGGGAGCCAACGGCCACCGCGCGGAGGACGC
GGCGGCGGCAATTGACTTGG-GTCTGTATGCTGCGGCGTGGTGAGATCACTGCCAGAGTATAGTAGGAGCAGTTGATCTA
GGTC--------TGGGAGTATAATGTGGTTTGTTCGACTCCGTCTATCTGCGTGTGTTAAA-TTTCAGTGTGAGCAGTGA
TGATCGTAGCACGATCTGGATCTTAC-TCTTGTAGTAATATTGTGGCCATCCTTGTATGTTTGAGTGCTCCATTTCAGTA
TGTAAGAAATGGCTAA------------AACATGTGCTGCTGGTGTGTGATGCTAGATCATAACTCAACATTCATGTAGC
TTCATGGCAAAATCCCAGCAAGAAAATCGGAACAA---ACGGGCTCATTCTTCTGTTTGAGGTAGCATCGGTCGTGCCCC
GGTTACAGGTTCAAGTTTTACAAAGAAATGCCAAGGGAA--------------------------------ACAACTACC
GAAAGCCAAGAGTTTCACATGGTATCCGAGATCCTACGCTCTTTGCGGATCAACCATAGAAGACAAACTTGCATACATTC
TGTGCAACTAGTAGTAGCTCAGCACTCTGTTGAGCCAAGCTCTCAATCAACACCCGGATTTTTACCTTGACAACGTCGGA
CTCAGAAACACAAATTATCAGAAGTTGCGTCCTATGCTGAACACGACTCCATGTTGCGCTGCTGCACGAAAATCTTCCAT
GATCTCAA---------------------GATGCTGAATGATGAGGCTTCTTCTAGCCTTCGACCGTTGCTCTACATCTT
TACTAC---ACCCTTTGTCCCTAAACGTAAGATGTTTTTGCAGCTCAATTTGAACTGCCAAAACATCTTACATTTAGAAA
CAT-----------------------------------------------------------------------------
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>SNPs
---S-----------------S--S---------S-------S-----S--------------------------S----
------------------------------------------------------------------------S---S---
-------------------SS-----------------------S------S---S---------S--S--S--------
S----------------S-S-------S--S----------------S------S---------S-------SS------
---S------S--S-----------------S-----------S---------------S---S------------S---
-----------------------------------------------------------------S--------S-----
-------S--S-S-SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS-------------
------------------S---S------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS----------------S----
-------------------------S--------------------------S-----SSSSSS----------------
----SSS-------------------------------------------------S----SS-----------------
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------------------------------------------------------------------------S-------
-------------------S------S----------------------------------S------------------
--------------------------S---------------------S-S-----------------------------
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---------------------------S---------------------------------------S-S----------
---------------------------------------------------------------S----------------
-----------------S-----S-------S------------------------------------------------
---------S----------------------------------------------------------------------
----------------------------------------------------------------------------S---
------------------S-------------------------------------------------------------
------S--------------------------S-----SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS---------
--------------------------S-----------------------------------------------------
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------------------------S---S---------------------------------------------------
-----------------------------S-------------------------------------------------S
---SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
>forward_856
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------------------------------------GGTTGGGTGAAGGCGATACA------------------------
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>reverse_2564
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---GGCCATGGACAAGATGTGGA---------------------------------------------------------
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