>input_sequence_84431
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---------------------------------------------ATGTTCCGGTGGGGCAAGAGCACCAAGAACCCAGC
TCCGGCCGCCGGGGAGGAGGTGGCGGTGCAAAAGGTGGAGAAGATCGAGTTCCGCAACCTCATCCACATCAAGCCTCCTG
TCGGCGCCGGCGGCGGGGCCATCGGCAACGCGTGGAAGCCACAGCCATGGACGGCCGGCGCCGGCAGCTCCGGCGCGGCG
AGGAAGCCCGACAGCCCCGGAGACGACATCAACTCGAGGGCGGGCAGGTTCATCGAGGACACTAAGAAGGGGTGGCGCCT
CGGCGTCAAGTCATTCGGCGGCCGTTAG----------------------------------------------------
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----------------------------------------------------
>chr1A_1_TraesCS1A01G084600
TTTCTTTTTTCCTTTCCTTTTCTTTCAGTGCATAGTATAATAGAGAGATACATACATAGATTGCACCATGCATTTA----
--------TGATGTGGCCAGGAACAAAACTTCCAATTATTAAAAAA-------GGGCATATTTCGTTCACATGATTTTAA
AAGCACAGGAATACAAAAAAACACAAGAACATGATAAA------------------------------------------
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-------------AATGCATGTGCAAAAACAGAGAATTGGCAATCATAGAAATTCTGACAACTTGATGTTTGGTTTACAG
GAATCGAAAAAACAAAGGAATCCTAATTAACATGGTCAAAATTTAAAGTCACGCCACGTGAAAATATATAGTTAGAACAT
TATT-ATGCCACTAAGGATCTCAGTCTCATTTGTTTTCTGCATAGTAATTTGA-AAAGAGGTCCAAGCAGATGTTAGAAT
TCATGAGTTTTTCCTTCAAACTGAGATAAAAGAAAATTTTCTTTCATTTTTTCTTTG----TCCCATTCCTTTGTACCAA
AAGGCATATGAATAATATCATCATAGGAAAAATTTACATTAATTCATATCTTTTGCCTCTACATTT-CCTTTGAACCAAA
AGAGGCATAAGTTTTTACATGGTATTATGTGGCGTTGGAGACATGCCAAAAGTT-CAACTGACTCAGACAACGGTGTGTG
CAGAATGACAAATCGCTGTCGTATAGTAACTAAAGAAACAAAATAAAAGCGGTCGTAGAGATATACTCCAGGTCGGTCAT
ATGTAAATCGAAGGAACAAACATATTCGCTCTACCTTAGCAGCGACAGCCATCCGTCATCCGTGCCATGAGAACCGAACA
TCACATCTACTGATGACCGCATTGACCTCGTGGTTAATGAGGGAATTTCTATGTGAAACTGTTATATCTTTACGGTATGA
ACATGTGTAACTACAAAAGCACATATGCCTCGCTATAAAAGGGGCCATCCGCTCGCCATCCCCATTCATCCAACCTTAGG
AAACAAACAAGCATCATATATACTCC---AGCAGCTAGGTCGAAGATGTTCCGGTGGGGCAAGAGCACCAAGAACCCAGC
TCCGGCCGCCGGGGAGGAGGTGGCGGTGCAAAAGGTGGAGAAGATCGAGTTCCGCAACCTCATCCACATCAAGCCTCCTG
TCGGCGCCGGCGGCGGGGCCATCGGCAACGCGTGGAAGCCACAGCCATGGACGGCCGGCGCCGGCAGCTCCGGCGCGGCG
AGGAAGCCCGACAGCCCCGGAGACGACATCAACTCGAGGGCGGGCAGGTTCATCGAGGACACTAAGAAGGGGTGGCGCCT
CGGCGTCAAGTCATTCGGCGGCCGTTAGAGAGCTAGCTGGCTAGCCCGCCGCCGGCCACCTTCTCGTCCATGCATGCATG
CGTGTCACGCTCCCTGCTCCGGCCGTCCTCGTCCGTAAAACATA-----ATTGATACTACTATATGTAAGTGTTAGCCGG
CCCGATTATGATGTGATCCTGCTCTAAACAATTTATCTGTAGTACAAAAAGGATATTGTATACGGCGCGCGATGCATGCA
TGCATGATACGGTGTGGTTTGTTAAATTCATCTGTATGACTGATGAATATACCAGCTAAATAATTTGGGTTTGTAT--GA
TGTTCGTTGGTTGCACGTGTGAGTTTGGTTAATGTACGTATG--------------------------------------
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---TTTTTAGTCACTGTCAGGGCATCGATGATTGGATTCGTAGTCCTCTCAGTTATTACGGCTAATCATCTTCCATTTGC
AGAATTTATTCGGAAGGATAGATCCACAGATGTAGTGGTAGGTGGTGCCGTGACGTTCACAAAAACACAAGGTTTTAGGC
TTTGCAAAGCGATCAACAGTTG----------------------------------------------------------
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------------------------------------GTAATAATGTAAACACGTTTAAACGAGGAGCATATATGAAATTT
CATCAAATATACTTCCCTGGTTTGAAATTGCATGATGTTTATAGC--CCAATTATTAGTATGCAACCTTAACAATTATTT
TGCCTACAAATTTGTTAGCCCAATCACTGTATTACTTTTTCGAAAATACTAATGCCCACACGTGTGGCAGTTTTGCAACT
CGCCCACACGTGTGGTTTATCGTCCAGTGCAGTTTGCACGAATCTTGACACATTGAGACAGAATTTGCATGCCACGTAGG
ACGAGACTGGTGTGTGGGCGTTGGAGAGTTTGCCCACACGCCCTGCATCACGCTGTTTGCCAGCTGCGCTGTGTGGGCGA
ACTGCTTTTCGCCCACACGACACTTCTACATTGTGGATGGCAACTGCAGTTACGCGAACGTGGCAACTAGGTAAACACAC
ATGGCAACTGTGATTCTTTGCTAGACGGCAACTGTAGTTGCGCGTACGTGGC
>chr1D_1
TTTCT-TTTTCATTTCCTTTTCTTTCAGTGCATAATATAATAGAGAGATACATACATAGATTGCACCATGCATTTA----
--------TGATGTGGCCAGGAAGAAAACTTCCAATTATCAAAAAAAATATTAGGGCATATTTCGTTCGCAGAATTCTAA
AAGCGCGGAAATAG-AAAAAACACAAGAATATGATAAA------------------------------------------
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-------------AATGCATGTGCAAAA-CAGAGGATTGGCAATCATAGAAATTATGTTGACTTGATGTTTGGTTCACAG
GAATCGAAAAAATAAAGGAATCCTAATTAACATGGTCAAATCA-AATGTCACACCACATGAAAATATATAGTTAGAACAT
TA-T-ATGCCACTAAGGATCTCAGTCTCATTT-TTTTCTTCATAGTAAATTGAAAAAGAGGTCCAAGCAGATGTTAGAAT
TCATGTGTTTTTCCTTCGAACTGAGATAAAAGAATTTTTTCTTTCATTTTTTCTTTGATTGTCCCATTCCTCTTAACC-A
AAGCCATATGAATAATATCATCATAGGAAAAAAATTC----ATTCATCTCTTTTGCCTCTACATTTCC-TTTGAACCAAA
AGAGGCATAAGTTTTCACATGGTATTATGGT--GTTGAAGATATGCCAAAAGTGCCAACTGCCTCAGACAACGGTGTGTG
CAGAATTACAAATCGCTGTCGTATAGTAAAATGGTACA-AAAATAAAAGCGGTCGTAGACATATACTCCAGGTCGGTCAT
ATGTAAATCGAAGGAACAAACATATTCGCTCTACCTTAGCAGCGACAGCCATCCGTCATCCGTGCCATGAGAACCGAACA
TCACATCTACTGATGACCGCATTGACCTCATGGTTAATGAGGGAATTTTTATGCGAAACTGTTATATCTTTACGGTATGA
ACATGTGTAACTACAAAAGCACATATGCCTCGCTATAAAAGGGGCTA-CCGTTCGCCATCCCCATTCATCCAACCTCAGG
AAACAAACAAGCAT--CATATTCATATATACCAGCTAGGTCGAAGATGTTCCGGTGGGGCAAGAGCACCAAGAACCCAGC
TCCGGCCGCCGGGGAGGAGGTGGCGGTGCAGAAGGTGGAGAAGATCGAGTTCCACAACCTCGTCCACATCAAGCCTCCCG
TCCGCGCCGGCGGCGGGGCCATCGGCAACGCGTGGAAGCCACAGCCACGGACGGCGAGTGCCGACAGCTCCGGCGCGGCG
AGGAAGCCCGACAGCCCCGGAGACGACATCAACTCGAGGGCGGGCAGGTTCATCGAGGACACTAAGAAGCGGTGGCGCCT
CGGCGTCAAGTCATTCGGCGGCCGTTAGCGAGCTAGCTGGCTAGCCCACCGCCGGCCACCTTCTCGTCCATGCATGCATG
CGTGTCACGCTCCCTGCTCCGGCCGTCCTCGTCAGTAAAAATTACAGTAATTGA---TACTATATGTAAGTGTTAGCCGG
CCCGATTATGATGTGATCCTGCTCTAAACAATTTATCTGTAGTACAAAAAGGATATTGTATACGGCGCGCGATGCATGCA
TG----ATACGGTGCGG-TTGTTAAATTCATCGGTATGACTGATGAATATACCAGCTAAATAATTTGGGTTTGTATATGA
TGTTCGTTGGTTGCACGTGTGAGTTTGGTTAATGTACGTATG--------------------------------------
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---TTTTTAGTCACTGTGAGGGCATCGATGATTGGATTCGTAGTCCTCTCAGTTATTACGGCTAATCATCTTCCATTTGC
CGACTTTATTCGGAAGGATAGATTCACAGATGTTGTGGTAGGTGGTGCCGTGACGATCACAAAAACACAAGGTTTTAGGC
TTTGCAAAGTGATCAACAGTTG----------------------------------------------------------
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------------------------------------GTAATAATGTAAACACGTTTCAACGAGGAGCATATATGAAATTT
CATCAAATATACTTCCCAGGTTTGAAAATTACATGATGTTATAGC--CCAATCATTAGTATGCAACCTTAAAAATTATTT
TGCCTACAAAATTGTTAACCCAATCACTGTACTGCTTTT-----------------------------------------
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----------------------------------------------------
>chr1B_1
TTTCT-TTTTCCTTTCATTTTCTTTCAGTGCATA--ATAATAGAGAGATACATACATAGATTGCACCATGCATTTACACA
TGCATTTATGATGTGGCCAGGAAGAAAACTTCCAATTATCAAAAAGAATATTAGGGCATATTTTGTTCGCATGATTCTAA
AAGCAAAGGAATAG-AAAAAACACAAGAACATGATAAGAATGCATTGGTTCGGATCAGAGACGGTGACGAGCACGCGGGA
TCCTTCTCGGCGGCTCTCGCGGCTTGGCGAGGCGGGGTGGGAGCCCTCCTCCTAGGCTCCAGTGGTGGCACACTCAGGCA
GTGGCCCGTGCGTCAGGGGTCCCACGGTGGCACTGTTGCTGCGGTTGGTCGCCGGATCTAGGCGGCTAGATCTGGGGCTT
TAAAGGCGGTCGAGACGGTGCACAGGTTGTTGGGTGCATTTCTTGGGACGGATCCGGGTGAAAACCTAATCTTCGGCCGA
TGGCCGGAGACGGTGATGACGATGCCGTTATCATCGTTTCCTTCATGAAGGCATCATCGAGGTGAAGCTCCCAACTCCAC
TCAATACCTCCGGGGGAAACCCTAGATCAGCTGATCGGATGTTGGCGGCAATCATGTGTCGTAACCCCCTTGGGGGCGAC
ATTCTTGGAGGTGCACTCGGCTTCGCGGGACCAGCGGACGGCTTCTTTGGTGGAGCGGTGCTTCATCCATACATTGATGG
CGACGGATCTGGACGGCGTGGCGCAGTGCAGATTCGGAGTTTGATGTGGAAGGATAGACTTGCGCAGGAGGACGACACAG
TCTGGCGTCGTGGTGGCGTCAATGGCTGAGAGACCTGGCACGGTAGATGCAACAGTACAACTCTGAAGATGGACTCGCGG
CAGGTTACTGCGGCGACCCCATTCCCAGCAGGCGTCCTGGTTGAGGAGTGCGCCGGACTGGTAGGTGCCTCATACCAGGC
AGGCGTCCTGGTTGGGACCTCATGTCTTAGATGTTTAGGTTTGGCTGCGATGTCTGTTTGGTATTAGGCCCAGACTATCA
GCGCCCCTTCATCAACTGGATAGGTGTAGCGACAGTTGTTGCTTAAACGGTGGCTTCAGTCTTACTGTTGTATGACTTTG
TTAGATTTTGTGGGAATAATTAATAAAGTGGCCGCATGCATCGTCCAGATGCAGAGACCAGGGGTCATCATCCTTTTCTA
AAAAAATGATAAGAATGCATGTGCAAAA-TAGAGGATTGGCAATCATAGAAATTCTGTCAACTTGATGTTTGGTTCACAG
GAATTGAAAAAACAAAGGAATCCTAATTAACATGGTCAAATTA-AAAGTCACACCACATGAAAATATATAGCTAGAACAT
TA-TGATGCCACTAAGGATCTCAGTCTCATTC-TTTTGTGCATAGTAATTTGG-AAAGACGTCCAAGCAGATGTTAGAAT
TCATGTGTTTTTCCTTCAAATTGAGATAAGAGAAAATTTTCTTTCATTTTTTTTCCT-TTGTCCCATTCCTGTTAAAC-A
AAGGCATATGAATAATATCATCATAGGAAAAATTTGC----ATTCCTGTCTTTTACCTCTACATTT-C-TTTGAACCAAA
AGAGGCATAAGTTTTTACATGGTATTATGGT--GTTGGAGATATGCCAAAAGCT-CAACTGACTC-GACAACGGTGTGTG
CAGAATTACAAATCGCTGTCGTATAGTAACATAGTACA-AAAATAAAAGCGGTCGTAGAC--ATACTCCAGGTCGGTCAT
ATGTAAATCGAAGGAACAAACATATTCGCTCTACCTTAGCAGCGACAGCCATCCGCCATCCGTGCCATGAGAACCGAACA
TCACATCTACTGATGACCGCATTGACCTCATGGTTAATGAGGGAATTTCTATGTGAAACTGTTATATCTTTACGGTATGA
ACATGTGTAACTACAAATGCACATATGCCTCGCTATAAAAGGGGCCATCCGTTCGCCATCCCCATTCATCCAACCTTAGG
AAACAAACAAGCAT--TATATACTCC---ACCAGCTAGGTCGAAGATGTTCCGGTGGGGCAAGAGCACCAAGAACCCAGC
TCCGGCAGCCGGGGAGGAGGTAGCGGTGCAGAAGGTGGAGAAGATCGAGTTCCGCAACCTCGTCCACATCAAGCCTCCTG
TCGGCACCAGCGGCGGGGCCATCGGCAACGCGTGGAAGCCACAGCCATGGACGGCCGGCGCCGGCAGCTCCGGCGCGGCT
CGGAAGCCCGACAGCCCCGGAGACGACATCAACTCGAGGGCGGGCAGGTTCATCGAGGACACTAAGAAGAGGTGGCGCCT
CGGCGTCAAGTCATTCGGCGGCCGTTAGCGAGCTAGCTGGCTAGCCCACCGCCGGCCACCTTCTCGTCCATGCATGCATG
CGTGTCACACTCCCTGCTCCGGCCGTCCTCGTCAATAAAAATTA-----ATTGA---TACTATATGTAAGTGTTAGCCGG
CCCGATTATGATGTGATCCTGGTCTAAACAATTTATCTGTAGTACAAAAAGGACATTGTATACGGCGCGCGATGCATGCA
TG----ATACGGTGTGG-TTGTTAAATTCATCGGTATGACTGATGGATATACCAGCTAAATAATTTGAGTTTGTA--TGA
TGTTCGTTGGTTGCACGTGTGAGTTTGGTTAATGTACATACTCCCTCCATTTCAGTTTACAAGTCCTACGCGTATACCTA
GGTTGCCAATTTTATCACCCTAATATAAACTATATAACACAAAAATTATACCTTTTGAAGATAGAACTTCTGAAGTTTAT
ATTCGTATAATTTTTGTAATATATGACTTGTATTAGGTTTGTCAAATTGACGCACACCCTGTAAACTGAGAGAGAGGGAG
TATTTTTTAGTCACTATCGGGGCATCGATGATGGGATTCGCAGTCCTCTCAGTTATTACGGCTAATCATCTTCCATTTGC
CGAATTTATTCGGAAGGATAGATTCCCAGATGTTGTGGTAGGTGGTTCCGTGACGATCACAAAAACACAAGGTTTTAGGC
TTTACGAAGTGATCAACGGTTGGTAATGATGAAGGGCGTTGTTACCAATCGTTAAACGAGGATCCTCGTTTAAATTTCAT
ATATGCTCCGAGGGCGTTGTGTTTAAACGAGGAGCATATATAACAACGCCCTTGTGTTTAAACGAGGAGCATATATGACA
GCAAATTTAAACGGGCAAGTTTAAACGAGGATCGGAGTAATAATGTAAGCAAGTTTAAACGAGGAGCATATATGAAATTT
CATCAAATATACTTCCCTGGTTTGAAAATTACATGACGTTATTAATACCAATCATTAGTATGCAACC-------------
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>SNPs
-----S----------------------------S---------------------------------------------
-----------------------S---------------S----------------------------S-------S---
-------------SS-----------------------------------------------------------------
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----------------------------S-----S----------------------S-----------------S----
----------------------------------------S-SS--------S----S----------------------
--S-----------------------------S-----------------------------------------------
-----S-----------------------------------------------------------------S-SS---S-
-----------------------------------S-SSSS------S--------------------S-----------
-----------------------------SSSS--------S--------------------------------------
------S-----------------------SS-SS-S-S--------------------S--------------------
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-----------------------------S--------------------------------------------------
---------------------------------------------------S----------------------------
--------------SS--------------S-------------------------------------------------
------------------------------S------------------------------S------------------
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---------------------------------------------------------------------S----------
----------------------------S------------------S--------------------------------
---------------------------------S------SS------------SSS-----------------------
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--SSSS-----------S--------------S-----------------------------------------------
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S----------------------S---------S---------------------S------------------------
---------S----------------------------------------------------------------------
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---------------------------S-SSSSSSSSS--------------S------------------S--------
----------S------S-------------S-S-----SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
>forward_1870
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----------TGATGACCGCATTGACCTCG--------------------------------------------------
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>reverse_3611
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----------GCCCACACGACACTTCTACA--------------------------------------------------
----------------------------------------------------
