>input_sequence_74878
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--------------------------------------------------------------ATGGCCTCCTCCCTCCTC
CGCTCCGGCCAGCGCCTCCTCCGCCACCACCGCGGCCGCCTCCCCGCGGCCTTCTCCACGGCGGCCGCCGAGGAGCTCAT
CGACGTGCGCAAGCTGCCCACCGACTACGACCCCTCCACCTTCGACCCGACCGCGCCGCCGTCCCGCCCGCCGCCCTCCG
ACCGCGTCTGGCGCCTGGTCGACGACGTCTCCGCCCTCACCCTCGCAGAGGCCGCCGAGCTCTCCGCCCTCCTGCTCCGC
CGCCTCGACATCCCCTCCGCGCCGCCCATCGCCATCCTCAACTCCGCCGCGGGCCTCGGCGGCGGCGGCGCGGCGGCCGC
CGGCGCGGCCGGCGACAAGCCGGCGGCCGCGGCCGAGAAGACGGTCTTCGAGCTGCGGCTCGACTCGTTCGACGCGGCGA
GCAAGATCAAGGTGATCAAGGAGATCCGGACGTTCACGGACCTCGGGCTCAAGGAGGCCAAGGAGCTGGTGGAGAAGGCC
CCTGCCGTGATCAAGGGAGGGTTGTCCAAGGAGGAGGCCGAGAAGATCGTTGAGCGGATGAAGGCCCTCGGCGCCAAGGT
CGTCATGGACTGA-------------------------------------------------------------------
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>chr1A_1_TraesCS1A01G381100
ATTCTTTATGTTCTCGTTTTCAAGTTTATCTTATAATATTTGCTCACTACAATGAGCTTTTGCTTTGCGTGATGTTCTAA
CATCGTGAATTTTTCATTTGCAGTCCTTCGTGCTGTTCTGGACGTATCCTTGATAAATTAATATGTGCTATTCTTTTTGA
ATATATCAAGCCCTTTTACTGCTTTTGTGTACCCACCCCCATCCTATTTTAACCGTTCCTCTGTTGATATA--TTTTTGC
TTGAGTTCATCCTTGACATCTACCAGATTTGCGTACGATATCGTCCACATTTTCTGAGTT-------CTGATGGAAGGAG
AGTCTGATGAACGCAACATGCTGCATCTTGTGATGGAAGGAGCTAATGTCAGATGAACCAAGCATATGCAAGATTTCCCC
TTAACATGATGGAACAATGGAGTCTCATCGTTATCCG-TTTTTGTTGTTAGTTACTAC----------------------
-------------------------------------------------------------TATTACTGTCTAGTTTGGT
GAACTGCAAC-----A-TTGTATATGCCTATTTGATGGCCAGTGTATCAGATATCACGGTGTAAACACCACACTTAAATT
CATTTACCCATGTCGTAGCTCGCCTGATGATCCAAAACAATTACATCACATCATTTCCTGCGTTCATGCTGTTGAATCAC
TTGCGATGAAAATGCTATTAATCTTATAGGCAATGGCTTCTAAATGTGTCCTCATTTGTTGTATATAATTCGGTTCACTT
GCTTCTTAAAAACAACATATAATCTGTCTTGTGTTTTTGATCCTTTTTTGTCAAAATCT--TGTGTTTTTTAGCTGATTT
TGATTGATTTA-TTTTCAATTTTTTGAGATTATATACTACTGCTGCTTTATTTTTTGAGAGAGAAGCATGACCTCATGTA
ACATAATGGGCTCATTGGGCTGGGTTTACTTCATGGGCCTAAGTCCAGATCCAAAGTCACAGGCCATGGTTTCATTTCCA
AAACCCAATTCCCACAGAGCATCGCTCCCACTGGACCCAGAACCCTAACCTCCCTCTCCACCATGGCCTCCTCCCTCCTC
CGCTCCGGCCAGCGCCTCCTCCGCCACCACCGCGGCCGCCTCCCCGCGGCCTTCTCCACGGCGGCCGCCGAGGAGCTCAT
CGACGTGCGCAAGCTGCCCACCGACTACGACCCCTCCACCTTCGACCCGACCGCGCCGCCGTCCCGCCCGCCGCCCTCCG
ACCGCGTCTGGCGCCTGGTCGACGACGTCTCCGCCCTCACCCTCGCAGAGGCCGCCGAGCTCTCCGCCCTCCTGCTCCGC
CGCCTCGACATCCCCTCCGCGCCGCCCATCGCCATCCTCAACTCCGCCGCGGGCCTCGGCGGCGGCGGCGCGGCGGCCGC
CGGCGCGGCCGGCGACAAGCCGGCGGCCGCGGCCGAGAAGACGGTCTTCGAGCTGCGGCTCGACTCGTTCGACGCGGCGA
GCAAGATCAAGGTGATCAAGGAGATCCGGACGTTCACGGACCTCGGGCTCAAGGAGGCCAAGGAGCTGGTGGAGAAGGCC
CCTGCCGTGATCAAGGGAGGGTTGTCCAAGGAGGAGGCCGAGAAGATCGTTGAGCGGATGAAGGCCCTCGGCGCCAAGGT
CGTCATGGACTGATCGGCCCCTGCATTTCGAGGTGAGATGAGATCTCTCTCGCGGAATTGGGAACTCAGATTAGCTTGAG
CCGGCACATTGATGACTTGCTGTAGTGAAATTGTCGAGAAACTGATGGCCCTTTCACCTATATG--GTTGTTGCTACCTA
GGATGTTG---------CCCATCACATTTCATTATGATGCAATGCCTTGCTGTCTAATCCAGTAATGTACCCACAATCGC
ATTTCATTATGATGCAATGTGTGCCATTTGATTGCATTATTTCGCTGTGATCCTAGTAAGCAATGTGTGACATTTGATTG
CATTGTTTCGCTGTGATCCTAATAACCCTTGCTGTTTAATCGCAACTGCACATTTCTGGATTTACAACTGTCCATTTG--
TCAGCAAGTCGAGTTATCGATTTCAGATGTATATGCAAAT---GTCTACTTTCTGCTGTGTTCCGTATGGATAAAATAAA
GGCCGCTCTACCTTGAATGGAACTGAATCCTTGTGTGTTGGTGTATATTAATTTTCTTATTCGCACATATATCACAAATG
CTGCGTTCCACTATTCCATAGAAAGAAGGAAGTAATTGTGCATTATGTATGCAAATTTAATTCTGCTCCTCATATCTGCA
GGCACTGCTGAATGTATGAACCATATGACCACCATGGTTGATTGCTGCGAGCATTGTGGGACTGTCAGTGCCAATTGAAT
CTTTTCAGGCTCAAAGGTCAC---AATGCTGGATTCTCTTAGTTGCCTTCACTCTTATTTTGTTGATGAATTTTCTGTCC
CTAACACGAAATGTGGAATAAAATATTTTGAAAAATCAGATAAGAAACATGTGCTGACATGCATTTGGTTTCTTGTTAGA
AGTACTATGGTGCACTGCCCTTCCTTGGCTCTGTGATCTGCTTGTGTTGTGGCAAAAGATTCAATTTTGGTGTAATGTGG
TGGCCAGTTAACCAACTACAGATTTGTACACTGGATTATTATGCAGTTATAAAACATGGTCAACCAATTGTT
>chr1B_1
ATTCTTCATGTTCTTGTTTTCAAGTTTATCTTCTAATATTTGCTCATTACGATGAGCTTTTGCTTTGCGTGATGTTCTAA
CGTTGTGAATTTTTCATTTGCAGTCCTTCGTGCTGTTCTGGACGTATCCTTGATAAATTAATGTGTGCTATTCTTTCTGA
ATATATCAAGCCCTTTTACTGCTTCTCTGTACCCACCCCCATCCTATTTTAACCGCTCCTGTGTTTGATATATTTTTTGC
TTGAGTTCATCCTTAACACTTACCAGATTTGCGTATGATATCGTCCACATATTCTGAGTTGTGAGTTCTGATGGAAGGAG
AGTCTGATGAACACAGCATGTCACATCTTCTGATGGGGGGAGCCAATGTCAGATGAACCAAGCATATGCAAGATTTCCCC
TTAACATGATGGAACAATGGAGTCTCATCGTTATCACATTTTTGTTGTTAGTTACTAC----------------------
-------------------------------------------------------------TATTACTGTCTAGTTTGGT
GAACTGCAGCGCAACATTTGTATATGCCTATTTGATGGCCAGTGTATCAGATATCACGGTGTAAACACAACACTTAAATT
CATTTACCCATGTCGTAGTTCACCTGATGATCCGAAACAATTACATCACATCATTTCCTGCGTTCATGCTGTTGAATCAC
TTGCGATGAAAATGCTATTAATCTTATAGGCAATGGCTTCTAAATGTGTCCTCATTTGTTGTATACAATTCGGTTAGCTT
GCTTTTTAAAAATAACATATAATCTTTCTTGTGTTTTTATCCATTTTTTGTCAAACCTTATGTGTTTTTCCAGCTGATTT
TCATTGATTTATTTTTCAATTTATTTAGATTATATGCTACTGCTGCTTTAATTTTTGAGAGAGAAGCATGACCACATGAA
ACATAGTGGGCTCATTGGGCTGGCTTTTCTATATGGGCCTAAGTCCAGATCCAAAGTCGCAGGCCATGGTTTCATTTCCA
AAACCCAATTCCCACGGATCATCGCTCTCACTGGCCCCAGAACCCTAACCTCCCTCTCCACCATGGCCTCCTCCCTCCTC
CGCTCCGGCCAGCGCCTCCTCCGCCACCACCGCGGCCGCCTCCCCGCGCCCTTCTCCGCGGCCGCCGCCGAGGAGCTCAT
CGACGTGCGCAAGCTGCCCACCGACTACGACCCCTCCACCTTCGACCCGACCGCGCCGCCGTCCCGCCCGCCGCCCTCCG
ACCGCGTCTGGCGCCTCGTCGACGACGTCTCCGCCCTCACCCTCGCCGAGGCCGCCGAGCTCTCCGCCCTCCTGCTCCGC
CGCCTCGACATCCCCTCCGCGCCGCCCATCGCCATCCTCAACTCCGCCGCGGGCCTCGGCGGCGGCGGCGCGGCGGCCGC
CGGCGCGGCCGGCGACAAGCCGGCGGCCGCGGCCGAGAAGACGGTCTTCGAGCTGCGGCTGGACTCGTTCGACGCGGCCA
GCAAGATCAAGGTGATCAAGGAGATCCGGACCTTCACGGACCTCGGGCTCAAGGAGGCCAAGGAGCTGGTGGAGAAGGCC
CCCGCCGTGATCAAGGGAGGGCTGTCCAAGGAGGAGGCCGAGAAGATCGTCGAGCGGATGAAGGCCCTCGGCGCCAAGGT
CGTCATGGACTGATCAGCCCCTGCATTTCGAGGTGAGATGAGATCCCTATGGCGGAGTTGGGAACTCAGATTGGCTTGAG
CCTGCACATGGATGACTTGCTGTAGTGAAATTGTGGAGAAACTGATGGCTCTGTTGCCTGTATACTGTAGTTGTTACCTA
GGATGTTTTAGCACACACCAATCACATTTCATTATGATGCAATG------------------------------------
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>chr1D_1
ATTCTGTATGTTCTCGTTTTTAAGTTTATCTTCTAATATTTGCTCATTACAATGAGCTTTTGCTTTGTGTGATGTTCTAA
CATTGTGAATTTTTCATTTGCAGTCCTTCGTGCTGTTCTGGACGTATCCTTGATAAATTAATATGTGCTATTCTTTCTGA
ATATATCAAGCCCTTTTACTGCTTTTCTGTACCCACCCCCATCCTATTTTAACCGCTCCTGTGTTGATATA--TTTTTGC
TTGAGTTCATCCTTGACACTTACCAGATTTGCGTATGATATCGTCCACATCTTC-------TGAGTTCTGATGGAAGGAG
AGTCTGATGAACACAGCATGTTGCATCTTCTGATGGAAGGAGCTAATGTCAGATGAAGCAAGCATATGCAAGATTTCCCC
TTAACATGATGGAACAATGGAGTCTCATCGTTATCACATTTTTGTTGTTAGTTACTACTCCCTCCGTAAACTAATATAAG
AGTGTTTAGATAACTACTTTAGTGATCTAAACGCTCTTATATTAGTTTACGGAGGGAGTACTATTACTGTCTAGTTTGGT
GAACTGCAACGCAACA-TTGTATATGCCTATTTGATGGCCAGTGTATCAGATATCACAGGTGTAACACAACACTTAAATT
CGTTTACCCATGTCGTAGTTCACCTGATGATCCGAAACAATTACATCACATCATTTCCGCCGTTCATGCTGTTGAATCAC
TTGCGATGAAAATGCTATTAATCTTATAGGCAATGGCTTCTAAATGTGTCCTCATTTGTTGTATACAATTCGGTTAGCTT
GCTTTTTAAAAACAACATATAATCTGTCTTGTGTTTTTGATCCTTTTTTGTCAAAATGTTGTGTGTTTTTCAGCTGATTT
TGATTGTTTT-TTTTTCAATTTTTTGAGATTATATACTACTGCTGCTTTAAGTTTTGAGAGAGAAGCATGACCTCATGAA
TCGTAATGGGCTCATTGGGCTGGGTTTACTATATGGGCCTAAGTCCAGATCCAAAGTCGCAGGCCATGGTTTCATTTCCA
AAACCCAATTCCCACAGAGCATCGCTCCCACTGGCCCCAGAACCCTAACCTCCGTCTCCACCATGGCCTCCTCCCTCCTC
CGCTCCGGCCAGCGCCTCCTCCGCCACCACCGCGGCCGCCTCCCCGCGGCCTTCTCCACGGCGGCCGCCGAGGAGCTCAT
CGACGTGCGCAAGCTGCCCACCGACTACGACCCCTCCACCTTCGACCCGACCGCGCCGCCGTCCCGCCCGCCGCCCTCCG
ACCGCGTCTGGCGCCTCGTCGACGACGTCTCCGCCCTCACCCTCGCCGAGGCCGCCGAGCTCTCCGCCCTCCTGCTCCGC
CGCCTCGACATCCCCTCCGCGCCGCCCATCGCCATCCTCAACTCCGCCGCGGGCCTCGGCGATGGCGGCGCGGCGGCCGC
CGGCGCGGCCGGCGACAAGCCGGCGGCCGCGGCCGAGAAGACGGTCTTCGAGCTGCGGCTGGACTCGTTCGACGCGGCGA
GCAAGATCAAGGTGATCAAGGAGATCCGGACGTTCACCGACCTCGGGCTCAAGGAGGCCAAGGAGCTGGTGGAGAAGGCC
CCCGCCGTGATCAAGGGAGGGTTGTCCAAGGAGGAGGCCGAGAAGATCGTCGAGCGGATGAAGGCCCTCGGCGCCAAGGT
CGTCATGGACTGATCGGCCCCTGCATTTCGAGGTGAGATGAGATCTCTCTCGCGGAATTGTAAACTCAGATTGGCTTGAG
CCTGCACATGGATGACTTGCTGTAGTGAATTTGTTGAGAAACTGATGGCCCTGTCGCCTATATACCCTAGTTGTTACCTA
GGATGTTTTAGCACACACCAATCACATTCCATTATGATTCAGTT------------------------------------
-----------------------------------------------------------------TGTGACATTTGATCA
CATTGTTTTGCTGTGATCCTAGTAACCCTTGCTGTTTAATTGCAACTGCACATTTCTGGATTTACAACTGTCCATTTTAT
TCAGCAAGTCGAGTTATCGATTTTAGACGTAGATGCAAATGTGGTCTACTTTCTGCCGTGCTCT----------------
----GCTCTGCCTTGAATGAAACTGAATCCTTGTGTGTTGGTGTGC-TTAGTTTTCTTATCCACGGCAC-ATCCCAAATG
CCGGGTTCCACTATTCCATAGAACAAATAAAGT-ATTGTGCAATATGTATGAAAATTTAAATCTGCTGTTCTTATCTGCA
GGTACTGCTGAATGTATGAACCATATGATTACCATGGCTGAGTGCTGCGAGCATTGCGGGACTGTCAGTGTCAATTGAA-
CTTTTCAGGCTCGAAGGTTTTCATAATGCTGGATTCTCTTAGTTGCCTTCACTCCTATTTTGTTGATGAATTTTCTGTC-
-TAACACGAAATGTGGAATAAAATGTTCT-AAAAATCAGATAAGAAGCATGCACTGAAATG-------------------
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>SNPs
--------------------------------S-------------S---------------------------------
---S------------------------------------------------------------------------S---
--------------------------S----------------------------S----S-------------------
------------------SS---------------S--------------S-----------------------------
------------S--S----S--------S--------------------------------------------------
-----------------------------------SS-------------------------------------------
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--------------------------------------------------------------------S-----------
------------------S--S-----------S----------------------------------------------
-----------------------------------------------------------------S---------SS---
----S----------------------------------------------------S------------S---------
--------------------------------------------------S---------------------------S-
------------------------------SS--------------------------S---------------------
----------------------------------S---------------------------------------------
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----------------S-----------------------------S---------------------------------
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------------------------------------------------------------S-------------------
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--S-----------------------------------------------S-----------------------------
------------------------------------------------------------------------S-------
--S------S------------------------S-----------------S--S-------S----S----S------
-------S-----------S------------------------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS-------------SS
--------S------------S------------------S------------------------------------S--
-----------------------S---S---S------------------------S---S--SSSSSSSSSSSSSSSSS
SSSS-----S---------S------------------------SSS---S---------S-S-SSSSSS---S------
-S-S-------------------SS--SS----S--------S--------S--------S------SS--S--------
--S-------------------------SS-------S---S--------------S-------------S--------S
------------S-----SSS---------------------------------S------------------------S
S-----------------------S--S-S----------------S----SS----S---SSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
>forward_350
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----------ACGCAACATGCTGCATCTTG--------------------------------------------------
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>reverse_2349
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----------------------------CCACCATGGTTGATTGCTGC--------------------------------
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