>input_sequence_77908
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--------------------------------------------------------ATGGCGTCCGGCAAGGTGCACACG
CACAAGGCGTTCCTCCTCTGCAACTACGCGCTGCTGGGCGCGGCCTCCAGCTGCATCTTCCTCACCCTCTCCCTCCGCCT
CCTGCCGTCCCCGTGCGGCCTGCTCCTCGTCTTCCTCCACGCGCTCACCGCCGTCTTCTCCGCCGCGGGCTGCTCCGGCT
CCTTCACGGCCGGCCCGGCCAACCCGGCGCCCTGGCACACCGCGCACACGGCGGGCGCCGCGCTCACCGCTATCTTCCAG
GGCGCCGTCGCGCTGCTCGCATTCACCCGCACCGCCGACTTCCTCGCCGAGCTCCAGTCCTACGTCCGCGACGACGACGG
CGCCGTCATCCTCAAGATGGTCGGCGGGCTCGGCACCGCCATCTTCGTCCTCGAGTGGGCCGCCCTCGCGCTCGCCTTCT
CCCTGCGCCTCGACGACGCCGAGGACGACGATGGCGACGACGACCTCCGCCGCGCCAAGAACTGGGCCGACGCCTACCAT
GTCTGA--------------------------------------------------------------------------
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>chr3D_1_TraesCS3D01G392800
CTGTAGAACATCCAAGTTTGGGTCAAACGGAGTCAAAGAACACAAACCTTGCACGCTCTCCGATGAGACTAACACTTGCC
AACCTTCGCCGGTTCGGAGCTAAAGTCGGACGACCAAGACGTACAGTCAGAGGACCATGTTGGCCACTCGGCAGGACAAC
ACAGCCGAGACAATCCTATAGAAAAAATACACCAAAACCGAAGAACCATATCGAGTGACACACATCCCTACGATACATGG
AAGCATCATCAAAACGAGGGCGAGACAAGCATACCTTATTCCCACGGTAGATCGCCTTGGGACAAGGGTAAGCACTGTCT
TTTGATAGTGTTTCCTGCAAAAAAATATACTCCCTCCGTTCGTTTTTATAAGGCGTTTAAGACAGCTGGTTTTGAACTGT
TTAGAGCACTGTCTGAACAGGCTTAAACGTCTTATATAAGTGAACAGAGGGAGTATATTATTTCTTACAATATTGTTTCT
CCTAGAACATATATGCTAGGACACAGATTCTAACTTGGGACAACTTGAGAGGGTGTAAATACAAAGCGGGTTCATACGTT
TTTTTTATAACTGAAACGGACTCATAGTTATCATACTTGAATTATTTAGATTTCTTTGGAAATGAATTAAGGGCGTTTTC
AATTTATTTTATGCCAAACTGAATAAAGTCACCCTCATGGTTTTACCTTACAAAAAGAGGGTTCTAATTAATTTGGTTTA
CTTAGAAAAACCGAAAGAAGGCGACTGCCCACGGGCCAGGCTCTCTGACCG----GGCTGGCTGCCCACTGGAAGGCAAA
GCA-----AAGCAACGGCTCTCTCCCGACTAGCCGTTGCCCCTAGCGCCGCGCCCCCAACGGCCATCTCCCCCGCGCCGC
GCGGCATAAAACCCGCCCGCCCCTCTCCTCCACTCCTCACTCCTCATCCCCACTCCCGATCAAGCCCACCAAGCAAGCAA
GT-CTCCCTCGATC------CGAGCACGCGGCAACTCCCGACCGTCCCCGGCTGCGATGGCGTCCGGCAAGGTGCACACG
CACAAGGCGTTCCTCCTCTGCAACTACGCGCTGCTGGGCGCGGCCTCCAGCTGCATCTTCCTCACCCTCTCCCTCCGCCT
CCTGCCGTCCCCGTGCGGCCTGCTCCTCGTCTTCCTCCACGCGCTCACCGCCGTCTTCTCCGCCGCGGGCTGCTCCGGCT
CCTTCACGGCCGGCCCGGCCAACCCGGCGCCCTGGCACACCGCGCACACGGCGGGCGCCGCGCTCACCGCTATCTTCCAG
GGCGCCGTCGCGCTGCTCGCATTCACCCGCACCGCCGACTTCCTCGCCGAGCTCCAGTCCTACGTCCGCGACGACGACGG
CGCCGTCATCCTCAAGATGGTCGGCGGGCTCGGCACCGCCATCTTCGTCCTCGAGTGGGCCGCCCTCGCGCTCGCCTTCT
CCCTGCGCCTCGACGACGCCGAGGACGACGATGGCGACGACGACCTCCGCCGCGCCAAGAACTGGGCCGACGCCTACCAT
GTCTGAGCGGCGAGCCTCCGCGCTTCCTGCATCTTCGCCCGGTGT----GGGGAGCGGCGCCTCCATCCAAGATGTTGTC
GATTTGGTGTTATTGCTGTTGCTATTCTTTTGTGCTACTAGTACT---------G---TGATATCACATTCTTTTGTACT
ATGATATGATGTCAAGGCAAATGTATATTGCTTTTGACCCCATTTAATCGAAGAAATATATTTATATTGCTTTGGATTTG
GGT-------------------------------------------------------------------------ACTT
G--------------ATTTATGCAGCCAATTCAGTACTACAACC--------TGGGAAAACTGGTGCTATCTGTCAGAGT
TCTTGCTGGAATCAAACAGGTGTCCC-CTGGCTCGCTTTCTCTGGGCTGTCTTGAGTGAGCCGGA---------------
--------------------------------------------------------ACTGAACCTGCTTAAGCCATTTAT
TCAGAAATATCTTCGATGCAACAGTGGCGGTCTAT----GGTGCCGCCGTGCAGGTACTTGGCAGCAAGCAGCGGGCGAT
CGAGACCCAGCTACTGATGAGTACTATTGCGCGAGCTAGGGACAGATAGATGGACTGGGTTATGTGTGTGCCTCGCTGAC
TTCAGTGTTCCACTTTTCTTT--TGTGTTTTGCTCGGTTTGCCCCCCTTGGAGCATCCC----TTTGGATTTTTCTTGGA
GGTAAATGCACCATGGTGCTTGAATTTGCCACGGCCGATTACCTTTTTTTTTGTGTGGTGACCATAGCTGATCACTTTGG
TGTCTGTAGTTGTGGCATACAAAAAAGTGGTGCATGAACTTGGCTTTCGCGTGCAATATAG-TGCATTTGCCGTCTGTGG
ACCTTAATTGAGCTGCGATGGCACCTTGTTTTCGTTTGAAGCCGTCTACTCAGCCGGCGTAGC----------------A
TCGGATGGGGGGATTGGAACTGCCGACCTATATAGGCAATACATGTGTTCGATTTGACGAACGCAGATTATCCCACTCCA
ATTAACGACGTTCATGAT-TCTTCAGGATATGTCTGTAACAAAATAAATTATACTAAAAATGTTCATGTATTTTTATTAA
AAAATCTTCATGTCATT
>chr3A_705
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----------------------------------------------------------------TAATTAATTTGGTTTA
CGTAGAAAAATCGAAAGAAGGCGACTGCCCACTGGCCAGGCTCTCCGACCG----GGCTGGCTGCCCACTGGAAGCCAAA
GCA-----AAGCAACGGCTCTCTCCCGACTAGCCGTTGCCCTTGGCGCCGCGCCCCCAACGGCCATCTCCCCCGCGCCGC
GCGGCATAAAACCCGCCCACCCCTCTCCTCCACTCCTCACTCCTCATCCCCACTCCCGATCCAACCCACCAAGCAAAGAA
AACCTCTCTCGATCCGACCACGAGCACGAGGCAACTCCCG-------CCGGCTGCGATGGCGTCCGGCAAGGTGCACACG
CACAAGGCGTTCCTCCTCTGCAACTACGCGCTGCTGGGCGCGGCCTCCAGCTGCATCTTCCTCACGCTCTCCCTCCGCCT
CGTCCCATCGCCCTGCGGCCTGCTCCTCGTCTTCCTCCACGCGCTCACCGCCGTCTTCTCCGCCGCGGGGTGCTCGGGCT
CCTTCACGGCCGGCCCGGCCAACCCGGCGCCCTGGCACACCGCGCACACGGCCGGCGCCGCGCTCACCGCCATCTTCCAG
GGCGCCGTCGCGCTCCTGGCATTCACCCGCACCGCCGACTTCCTCGCCGAGCTCCAGTCCTACGTCCGCGACGACGACGG
CGCCGTCATCCTCAAGATGGTCGGCGGGCTCGGCACCGCCATCTTCGTCCTCGAGTGGGCCGCCCTCGCGCTCGCCTTCT
CCCTGCGCCTCGACGA------GGACGACGACGGTGACGATGACCTCCGCCGCGCCAAGAACTGGGCCGACGCCTACCAT
GTCTGAGCGGCGAGCCTCCGCGCTCCCTGCATCTTCACCCGCTGT----GGGGAGCGGCGCCTCC---------------
---TTGGTGTTACTGCTGTCGCTATTCTTTTGTGCTAGTAGTACTGTGTGTACCG---TGGTCTCAGATTCTTTTGTACT
ATGATATGATGTCAAGGCAAATGTATATTGCTTTTGACCT-ATTTAATCGAAGAAATATATTTATATTGCTTTGGATTTG
GGTACTTGGTTGTACTCCCTTCAATTTCAAAATAGATGACTCAACTTGTAAGTGCATGATTTATGCAGCCAATTAAACTA
G--------------ATTTATGCAGTCAATTCAGTACTACTACAGTACAACTTGGGAAAACTTGTGCTATTTTTCAGAGT
TCTTGCTGAAATCAGA-----------CTGGCTCGCTTTGTCTGGGCTGTCTTGAGTGAGCCGGTGCGGCGGTGCTGGGC
ACCTATTGGTAGAAGTGGGGATTAAACGCAACTGTAGTTGCTGTGTGCTAGGGTGTACTGAACCTGCTTAGGCCAGTTAC
TCAGAAATATCTTCGATGCAACAGTGGCGTGTGGCGGTCGGTGCCGCCGTGCTG------GGCAGCAAGCAGCGGGGGAT
CGAG----------------------------------------------------------------------------
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-GTAAATGCACCACGGTGCCTGAATTTGCCACGGC---------------------------------TGATCACTTTGA
TGTCTGGACTTGTGGCATACAAAAAAGTGATGCATGAACTTAGCTTTTGCGTGCAATATAGTTGCATTTGCCGTCTGTGG
ACCTTAACTG--------TGGCACCCTATTTTCGTTTGAAGCCGTCTACTCAGCCGGCCTAGCATCGGGTGGAGTAGTGA
TCGGGTGGGGGGATTGGAATTGCCGACCTGC--AGGCAATTCATGTGTTCGATCCGATGAACGCAGGTTATCGCGCTCCA
ATGAGCGACGTTTCATGACTCTTCAGGCTATGTCTGTAACAAAATAAATTACACTAAAAACGTTCATGTATTTTTATTAA
AAAATCTTCATGTCATT
>chr3B_732
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-----------CGAAAGAAGGCGACTGCCCACTGGCCAGGCTCTCTGACCGAGCTGGCTGGCTGCCCACTGGAAGGCAAA
GCAGAGCAAAGCAACGGCTCTCTGCCGACTAGCCGTTGCCCTTGGCGCCGCGCCCCCAACGGCCATCTCCCCCGCGCCGC
GCGGCATAAAACCCGTCCACCCCTCTCCTCCACTCCCCACCCCTCATCCCCACTCCCGATCCAGCCCACCAAGC-AAGAA
AACCTCCCTCGATCCGACCACGAGCACGAGGCAACTCCCG-------CTGGCTGCGATGGCGTCCGGCAAGGTGCACACG
CACAAGGCGTTCCTCCTCTGCAACTACGCGCTGCTGGGCGCGGCCTCCAGCTGCATCTTCCTCACGCTCTCCCTCCGCCT
GCTGCCCTCCCCGTGCGGCCTGCTCCTCATCTTCCTCCACGCCCTCACCGCCGTCTTCTCCGCCGCGGGCTGCTCCGGCT
CCTTCACGGCCGGCCCGGCCAACCCGGCGCCCTGGCACACCGCGCACACGGCGGGCGCCGCGCTCACCGCCATCTTCCAG
GGCGCCGTCGCGCTCCTCGCATTCACCCGCACCGCCGACTTCCTCGCCGAGCTCCAGTCCTACGTCCGCGACGACGACGG
CGCCGTCATCCTCAAGATGGTCGGCGGGCTCGGCACCGCCATTTTCGTCCTCGAGTGGGCCGCCCTCGCGCTCGCCTTCT
CCCTGCGCCTCGACGACGCCGAGGACGACGACGGCCAGGACGACCTCCGCCGCGCCAAGAACTGGGCCGACGCCTACCAT
GTCTGAGCGGCGAGCCTCCGCGCTCCGTGCACCTTCGCCCGCTGGAGCGGGCGAGCGGCGCCTCCATCCAAGATGT-GTC
GATTTGGTGTTGTTGCTGTCGCTATTCTTTTGTGCTAGTAGTACTGTGTGTACCGTGATGATCTCAGATTCTTTTGTACT
ATGATATGATGTCAAGGCAAATGTATATTGCTTTTGACCCCATTTAATCGAAGAAATATATTTATATTGCTTTGGATTTG
GGT-------------------------------------------------------------------------ACTT
GGTTGCAAGTGCATGATTTATGCAGTGAATTCAGTACTACAACC--------TGGGAAAACTGG-------TGTCAGAGT
TCTTGCTGGAACCAAACAGGTGTCCCCCTGGCTCGCTTTGTCTGGTCTGTCTTGAGTGCGA--GTGAGCCGGAGCTGGGC
AGCTCTATTGGTGTTGGTGTGTGGA--------------------TGCTAGGGTGTA----ACCTGATTAGGCC----AT
TCAGAAATATCTTCGATGC-------------TAT----GGTGCCGCCGT----------GGCAGCAAGCAGCGGGCGAT
CGAGACCCAGCTACTGACTGATATTGCGCAA----CTAGGGACAGATAGGTGGATTGGATTATGTGT----CTCGCTGAC
TTCAGTGCTCCACTTTTTTTCTGTGTGTTTTGCTCGGTTGG-CCCCCTTGGAGCATCATCCCTTTTGGATTTTTCTTCGA
GGTAAATGCACCATGGTCCTTGAATTTGCCACGGCCGATTACCTCTTTTTTTGTGTGACATG----GCTGATCACTTTGG
TGTCTGTAGTTGTAGCATACAGAAAAATGGT-------------------------------------------------
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>SNPs
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS----------------
-S--------S---------------------S-----------------------------------------------
-----------------------------------------S-S------------------------------------
------------------S------------------------------------------S--------------SS--
SS--------------------------S-----------SSSSSSS---------------------------------
-----------------------------------------------------------------S--------------
------S-------------------------------------------------------------------------
----------------------------------------------------------------------S---------
--------------S-----------------------------------------------------------------
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-------------------------------S------------------------------------------------
------------------------S----------------S----------------------------------S---
-------------------S-----------------S------------------------S---S-------------
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-------------------------S--------------------------------------------S---------
---------------------------------------S------------------------S---------------
----------------------------------------------------------------------S----S----
-----------------------------SSS--------------------S-SSSSSS--------------------
-----------------SSSS--S-SSSSSSSSSS--------------S----S---S--------SSSS---------
-------S---------S--S------------------S-S---------------SS------------------S--
--------------------------------------------S------------SSSSSSSSS--------------
-----------------------------------------S-----S--------------------------------
-------S--SSSSSSSS-------S-S------------------------------S---------------------
----S--------------S---------SSSS-------S------------SS--S--------S-----S-S-----
--S-S-------SSSSSS---------S-----------------------S--------S-------------------
-----------------
>forward_60
----------------------------------------CACAAACCTTGCACGCTCTC--------------------
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>reverse_2219
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----------------------------------------------------------GTTATGTGTGTGCCTCGCTG--
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