>input_sequence_84003
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----ATGCAAAAAACCATAAGTTTTATCGTTGAAACTTTAAGTTTTTCAAGGGATTTTCTTGTTGAAATCAATTATTCCC
ATTTTCTCGTTCTTTCGGTCCTCTGCTCGGTTCCTATACATGCAATGCTAGTGCTTGCTCTTCCGATGAAGACCATCCAT
GCCATGAACAAGATCATCCGAGGATTCTTGTGGTGCGGCAAAGCCCAAGAAAATGGTGGAAACTGCTCTGTTGCATGGGA
GACAATCTGCACGCCCAAATGGGCAGGTGGTTTGGGCATACCCGACCTTGCATGGTTGAATGTGGCCTTGGAGGCAAGAT
AG------------------------------------------------------------------------------
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>chr3A_1_TraesCS3A01G083100
CTCGTTTAGAGGCGATTGGCTAGTGGGTTTGCTCATGGTCTTCTAATCATCCCATCGTTTTTCGCTTGGGAGTGGCAAAA
GTAGGTAAATACTCCCTCCGTTCCTAAATACTTGTCTTTCTAGGCATTTCAACAAGTGACTACATACGGAGCAAAATGAG
TGAATCTACACTCTAAAATATGTCTACATACATCCGTATGTACTAGTCATTTGAAATGTCTAGAAAGACAAGTATTTAGG
AACGGAGGGAGTAGTACGCAATTTCTAGAGGACGGCTGAACGGTTCGCT-----------------------------AA
GAATCTCGAGAAGTTGAGGTAGATTGGCTGTGAGATTTGCACCACGTGGAAGTTATAGGTTTT-ACAGAAGCTGATGTCA
AAATTTTCCCTTTGGTTAGCTTCTAGCTTTTTGAAAGCCGAAGTTACAAAAATAAGCTCAACCAAACACAGCCTAACTCA
TGCTTCAAAACTGTACTAACTCATATTTTAAAATTGTACTAACTTGTGCTCCCCCATTTTGAAGCACCACTGTGCTACCA
TGAAAACACAGT-GTACTAAGTTGTGTTCCTACATATTGAAGCAGAATTGTGCTCCCAAGAAGAAACACGCATGTGTTTC
GCAAAGTGTGCCAACTTTGTGCTCCCGTGA------------TGCTTCGCTTTTGAAGGAGCACGGTTGTGCTTTCACGC
AAAGAATCGGGCGAGGATTTACGGCACGCAAATGCGGGGGCACTCGGGTCCTGGTGGCGTCTTTTTATTTTGACTTTTGA
TTTTCAAAGTTTTATATCTTAAA-AAAAATAAGTTATGTTTTTATATGTGTGTTTCTCGTGACTGACGCTTTGAAATAAG
AATCATTTTTAATATATTTTGACGACTTCTAAAAATATATGTTAAGTTTCAATGTTGAAACTTAGTACGAGCGACCGATA
AAAATCAATTATTTTGTGTCTACGACTGACAGGAAAAATTACTTAAAATTTATCTCTGCAACTTGTTGAAACTTGGATTT
TTAGATGCAAAAAACCATAAGTTTTATCGTTGAAACTTTAAGTTTTTCAAGGGATTTTCTTGTTGAAATCAATTATTCCC
ATTTTCTCGTTCTTTCGGTCCTCTGCTCGGTTCCTATACATGCAATGCTAGTGCTTGCTCTTCCGATGAAGACCATCCAT
GCCATGAACAAGATCATCCGAGGATTCTTGTGGTGCGGCAAAGCCCAAGAAAATGGTGGAAACTGCTCTGTTGCATGGGA
GACAATCTGCACGCCCAAATGGGCAGGTGGTTTGGGCATACCCGACCTTGCATGGTTGAATGTGGCCTTGGAGGCAAGAT
AGTCGTGGCTACAGCGAGTGGATCAGCAAAGGCCATCGCGCCACCGGTCT------------------------------
-----------------GATAATAGTAGGGGACGGGAATCTAACCCTCTTCTAGGAGGATCATTGCATGGATGGATCCTG
TCTTAAGGAAATCGCGCCACCGGTCTATGAGGTAGTCACTCCACGCGCAAGGAAATCAAGATCGCTCAATGATGCCATCT
CTTCGAGTGTCTAGGCAACTTATATCAAACCAAACATAGGGCTCGAGGGCCTCTGGCAGTACCTTCATCTATGGCAGAGG
GTGCAAGAAGTAACGCTGCAGGAAGGCATGGATGACATCATATCTTGGTCTTGGAAGGGCGACGACAAGTTTTTAGTCCG
TTCAGCTTATGCTGTGAAGTTCGTTGGTAGAAAGGTGTCGGCCACAGCGCAATTCACGTGGAAGTCTAAAGCACCATTGC
GCTGCTGCTTCTTTCTATGGCTAGCCATGAAGAACAGGTGTTGGACAGTGGACCGCCTGGCGCCGCGAGGCCTACCGCAT
CCGGATGCATGCTCGTTCTGCAACGAGCAAGTGGAGACTTTGGACAACATCGAATTGACATGGGTCTTCGCAAGGACGGT
ATGGAGGACCTTGTGCACCACGATCGGCAAACCGTCCTGGACGCCCACGGGGGGCCACGGCACATGACACATTGGCAGGT
TGGTGCATGAACAAGCCAAAGAACACGCGCATCATCGTAACCATAGTATTATGGGAGCTTTGGAAGCATCATATTATCGC
TTCTCCCTCGCTTGACGGGCTCATTGAGAGGATAGTGGCGGAAAGGAACGACTGGCATCGTGCTGGATTGCTTAAGGGAG
ACTGGAACGGCGTAGCAGCCAAGCTATTAAGGTGGGCGAGCGGCGAGTAGTCCTAGATTATGTTCTTCTCCGAGTAGACA
TGGAAGCTTGGCTCATGATAGTTTATATGTACTCCCTCCGTTTTCCTTTACTCCGCGTATAAAATTTGGTCAAAGTCAAA
CTACACAAA
>chr3D_2
TCGTTTG-GAGGCGATTGGCTAGTGGGTTTGCTCATGGTCTTCTATTCATCCCATCGTTTTTCGCTTGGGAGTGGCAAAA
GTAGGTAAA-----------------------------------------------------------------------
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-----------TAGTACGCAATTTCCAGAGGACGGCTGAACGGTTCGCTAAGAATCTCGAGAAGTTCATTTAAAAAAAAA
GAATCTCGAGAAGTTGAGGTAGGCTGGCTGTGAGATTTGCACCACGTGGAAGTTATAGGTTTTTACAAAAGCTGATGTCA
AAATTTTCCCTTTGATTAGCTTCTAGCTTTTTGAAAGATGAAGTTACAAAAATAAGCTCAACCAAACACAGCCTAACTCA
TGCTTCAAAACTGTACTAACCCATATTTTAAAATTGTACTAACTTGTGCTCCCCCATTTTGAGGCACCACTGTGCTACCA
TGAAAACACATGCGTACTAAGTTGTGTTCCTACACATTGAAGCAGAATTGTGCTCCCAAGAAGAAACACGCATGTGTTTC
ACAAAGTGTACCAACTTTGTGCTCCCATGAAGCACACATGTGTGCTTCACTTTTGAAGGAGCACGGTTGTGCTTTCACAC
GAATAATCGGGCGAGGATTTACGGCACGCAAGTGCGTGGGCACTCGGGTCATGGTGCCGTGTTTTTATTTTGGCTTTTGA
TTTTCAAAGTTCTATATCTTTTAGAAAAATAAGTTATGTTTTCATATTCGTGTTTCTCGTGACTGACGCTTTGAAATAAG
AATCATTTTTAATATATTTTGACGACTTCTAAAAAAATATGTTAAGTTTCAATGTTAAAACTTAGTACGAGCGACCGATA
AAAATCAATTATTTTGTGTCTACGTCCGACAGGAAAAATTACTTAAAACTTATCTCTG----------------------
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>chr3D_1180
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-----------------------ATTCTTGTGGTGCGGCAAAGCCCAAGCAAATGGTGGAAATTGCTCTGTTGCATGGGA
GACAATCTGCATGCCCAAGTGGGCAGGTGGTTTGGGCATACCCGACCTTGCATGGTTGAATGTGGCCTTGCAGGCAAGAT
GGCCGTGGCTACAGCGAGTGGATCAGCAAAGGCCGTGGAACGAGTTCAGTATTGCGGTCCCGAAAGCATCATCAGCTCTA
TGCAATGCCGCAACCAGGATAATAGTAGGGGACGGGAATTG-ACCCTCTTCTGGGAGGATCGTTGGATGGATGGATCCTG
CCTTAAGGAAATCGCGCCACTGGTCTATGAGGTAGTCACTCCACACGCAAGGAAATCGAGATCGCTCAATGATGCCATCT
CTTCGGGTGTCTGGGCAACTGATATTAAACCAAACTTAGGGCTCGAGGGCCTCTGGCAGTACCTTCATCTATGGCAGAGG
GTGCAAGAAGTAACGCTGCAGGAAGGCATGGATGACATCATATCTTAGTCTTGGGAGGGCGATGGCAAGTTTCCAGTCCG
TTCAGCTTATGCTGCGAAGTTCGCTGGTAGAGAGGTGTCGGCCACAGCGCAATTCACGTGGAAGTCTAAAGCACCGGTGC
GCTGCCGCTTCTTTCTATGGCTAGCCATGAAGAACAGGTGTTGGACGGCAGACCGCCTGGCGCCGCGAGGCCTACCGCAT
CCGGATGCATGCTCGTTCTGCGACCAGCAAGTGGAGACCTTGGACCACATCGAATTGACATGCATCTTCGCAAGAACGGT
ATGGAGGACCTTGTGCACCACGATCAGCAAGCCGTCCTGGACGCCCAC---GGGCCACGGCACATGACACATTGGCAGGT
TGGTGCGCGAACAAGCCAAAGAACATGCGCATCATCATAACCATAGTATTATGGGAGCTTTGGA-GCATCCTATGGCCGT
TTCTCCCTCGCTTGATGGGCTCACTGAGAGGATAATGGCGGAAAGGAATGACTGGCATCGTGTTGGATTGCTTAAGGGAG
ACTGAAACGGCGTAGCAGCGGAGCTATTAAGGTGGGCGAGCGACGAGTAGTCCTAGATTATGTTCGTCTCCGAGTAGACA
TAGGAGCTTGGCTCATGATAGTTTATATGTACTCCCTCCGTTTCTTTTTACTCCGCATATAAAATTTGGTCAAAGTCAAA
CTACACAAA
>SNPs
SSSS--SS-------------------------------------S----------------------------------
---------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSS--------------S------------------------------------------------------
----------------------SS-------------------------------------------S------------
--------------S----------------------SS-----------------------------------------
--------------------S-----------------------------------------S-----------------
----------SS----------------------S---------------------------------------------
S--------S----------------S---------------------S-----------------------------S-
S--S---------------------------S----S-------------S-----S---S-----------S-------
-----------S--------SS--------------------S----SS-------------------------------
-----------------------------------S--------------------S-----------------------
------------------------S-S---------------------S---------SSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSS--------------------------S------------S-----------------
-----------S------S---------------------------------------------------S---------
S-S-------------------------------S-S-SS-S-SSSSSS-------------------------------
---------------------------------------SSS----------S--------S---S--------------
S-------------------S-----------------------S------------S----------------------
-----S------S-------S----S---------S--------------------------------------------
----------------------------------------------S-------S-------S-S-------SS------
--------------S--------S-------S-------------------------------------------SS---
-----S----------------------------------------S-SS------------------------------
---------------------S--S-------------S------S----------------SS----------S-----
-------------------------S----S-----------------SSS-----------------------------
------SS-----------------S----------S---------------------------S-----S---SSS--S
---------------S-------S----------S-------------S-------------S-----------------
----S--------------SS---------------------S----------------------S--------------
-S-S---------------------------------------SSS----------S-----------------------
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>forward_724
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----------------------------------------------------------------GGTTGTGCTTTCACGC
AAAG----------------------------------------------------------------------------
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>reverse_1784
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-----------------------TTGGTAGAAAGGTGTCGGCC-------------------------------------
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