>input_sequence_78442
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------------------------------------------------ATG--GCCGCTCCTTCTCCCGCCGTCGCCGCC
GTCAGCAGT---GCGCCCTCGTCCGGGCTCCTGCCGGCGCGGC------------GCGCGGCGCCGTGCAGCGCCGTCCA
GGTCCAGCTGCCGTCGATAAGGAGAG---------CCGCGCCGGGGGGCAGGATGGCGACGGTGGCGCGCGCGGTGGGCG
ACGTGGGGGCGGAGGGCAACACGTACCTCATCGCCGGCGCCGTGGCCGTCGCGCTCGTCGGCACTGCCTTCCCCATCTTC
TTCTCCCGCAAGGACACGTACGTGGCCGAATGAAAAAGGACCAAATCGAGATCTTGCATGGCCTTTGATGTGGCACGCTG
ATACTCTTTTGCCGCATGCGTGCGTGCAGGTGCCCCGAGTGCGACGGCGCCGGGTTCGTGCGCAAGTCCGGCTCGACGCT
GCGGGCGAACGCGGCGAGGAAGGACCAGGCGCAGATCGTGTGCGCCAACTGCAACGGACTCGGCAAGCTCGGGCAGATCG
ACAAGTAG------------------------------------------------------------------------
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>chr1A_1_TraesCS1A01G030000
TCTTCCGTGGATCTCGTTA-GGAGTGGACCGAGCGAAAGAAATTTTGTGGGAGTGTCCGAATGGGGCAGGGCGAGGGAGA
GAATGAGCGGAGTGTGGGTTGCGCGGCTACGGTTTTGTGAATTTCATTCACGACACTCATGTCCCACATGTCCTATTCCA
T----TATAGCCCGGTATACGGGGTTTTACCAAAGGTTTCGATTTTCTCAACAGCAAAAAAAAAGGGTTTCGAGGTATGA
AAGAGTTTGCCAAGCAAAGGTTTGGAAATCTGCC----CACATGCATGACTGGTTGGGGGAAGAG--------TGTGGGG
AGATGACGACATGATGGCAAAGGAAATGTCATCATCCCGATGAAATGTTCCGGCCGCTATACCAGTCCAACTGCGTGCCG
ATAAACCATCCTGCCGTTCCTCTCTCTATATATAGCTCATGGAAACATCGCCTGATTAATTGTTCTGTCA-ACGACAAGA
ATGCATCTCTTCTCCCCTCGATCGTCTACTACATGTCCAAGCTGCCACCATGCATGCATGCTTTCTCAAACTCGGTATCT
TGGATGTCTTTCCGTTTGGTTCTTGATTCTGATGAGCT-GCTGCATGATTCTGATTCAGCTTT-----------------
----------CTGATTCAGGTT---TTTGGTAAAACTTTTAATTCTCTGGAAAGCAGTGTATGTA---------------
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------------------------------------GTAGTAGTATGTGGTTGAGCAGCTGATTATTAAAAAAAAATCC-
----------------------CCAGAATCAG---TGCATGCAT------------------------------------
------TTTCTTTGTGTGAGCTTCCAGTGACCGAGCAGTCCGCTGTCCGCCGTGCCGACTGCCGGTCAGAAACCCGGGCC
CACCTTATCTGAGCTCGGTGGAGCGGAGTGGCTATCCCGGCATGCACGTATCCATCTTATCTTCCCTAGAAGGAAGAAGC
TTTCAGCTTTGTGCGGCCGCAGATCGACGCCGCGCGCGCGCAGTCCAATCCATATCACTCCGCTAGCGCTACGTACGCCT
CGCTTCACTTCACCAGCAGATCCAGCGGACAACCCAGGCAAAAACACAATG--GCCGCTCCTTCTCCCGCCGTCGCCGCC
GTCAGCAGT---GCGCCCTCGTCCGGGCTCCTGCCGGCGCGGC------------GCGCGGCGCCGTGCAGCGCCGTCCA
GGTCCAGCTGCCGTCGATAAGGAGAG---------CCGCGCCGGGGGGCAGGATGGCGACGGTGGCGCGCGCGGTGGGCG
ACGTGGGGGCGGAGGGCAACACGTACCTCATCGCCGGCGCCGTGGCCGTCGCGCTCGTCGGCACTGCCTTCCCCATCTTC
TTCTCCCGCAAGGACACGTACGTGGCCGAATGAAAAAGGACCAAATCGAGATCTTGCATGGCCTTTGATGTGGCACGCTG
ATACTCTTTTGCCGCATGCGTGCGTGCAGGTGCCCCGAGTGCGACGGCGCCGGGTTCGTGCGCAAGTCCGGCTCGACGCT
GCGGGCGAACGCGGCGAGGAAGGACCAGGCGCAGATCGTGTGCGCCAACTGCAACGGACTCGGCAAGCTCGGGCAGATCG
ACAAGTAGAGCCTCCCCTAAGCGACGTCC---CTTCTCCACTTCACGCCTCCTTCTGCGCATATATGTGCATCGA-----
--TCCCGTCGATCGGTCGCGTCTTCGTCTTCCTCCTC-TCGTCCTCCCCTGTTTTCTTGCAGTTGCGTGGGACGCAGGAA
TCCTACAGGAACTG------ATCCATATAGAGAAGATCGAGGTCCTGTAGAATTCCCGGGTTCCCAACTGCA-----TCC
TTCACCGTGATTTTTCTTCTTTCTTAGTTTCTTTTACCGCGTTGCGCCGGATGTGTGAG------------GTCTCGTGT
TAATAACTGTGTGCCTGTGTATAGATAT----------------------------ATGC--------------------
--------TTTCTGTGGACCGTGGA-GTATAT------------------------------------------------
-------------------GTACGTGCGTGTATGACACAATGTACTAATGTGGAGCGGGATTGCTAAATCTGAGTCATCT
GAGTCGACTCAAGACTCAAACCGTATTACTCCCTCCTTTCCGGTTTATAGGGCTTGTCTCAAAATCTTAGTTTTTCCATT
TTATAAGGCTCAATTTGGTTGTTCCTCATCACAAGTTCAGATTTCAAGGTGTATTAAATCATTACATGCAACTATTAAGA
GAAAATTGACCAATGCATATACTTTATGCATGCATGCATTGCAATTAATACATTGGCAAATATAAATTTTTGAGAAAAAC
AAGAGCATTAATTGGGTGCTTTTGCAAATTACAAAAAGTATTCCACCACTTATCATCTACCTTGGTTGGTGAGATTTTTG
AATTGAGCCCTATAAACCGGAAAGGAGGGAGTATATTCGTGAGGTTTTACATGGAGACCCATGCAGAAATTTCCTTTTTA
TTTTTATATATTATGTCACACGACTGAGAATTGTATCGATTAAGATCTAGCCACACCCAATGTGAAACCTACTGCACAGC
AGAAATTGCAGACCGCAGGCCGCAGCGCTGCTGCGTGGTGTCCTCATCCCCGAATTGGGGCGAGGAAAGATAAGAATGTA
ATGGAGGTAGAGGGAGAAGCAACGTGACCCCCTTAGGGACCTCTTT
>chr1B_1
TCTTCCGTGGATCTCGACGCGGAGTGGACCGAGCGGGAGAAATTTTGTGGGAGTGCCTGAATGCAGTT------GGGCGA
GAGGGAGTGGACTGTGGGTTGCGCGGCTATGATTTTGTGACTTTCATTCACGACAGTCATGCCCCACATGGCATA----T
ACATATATAGCCTGGTATATGAGGTTTTATCAATGTTTTTGATTTTCTCAAAATAAAAAAAAAG----------------
--------GCCAACCAAAGGTTTGAAAATCTACCCGTACATATGCATGATTGGTGAGGGGAAGAGACGAAGAGCGTGGGG
AGATGACGACATGATGGCAAATGAGATGTCATCATCCCGATGAAATGTTCCGGCCGCTATACCAGTCCAACTGCGCGTTA
----------------------TATATAAATATAGCTCGTGGAAACATCGCCTGGTTAATTGTTCTGTCCCACGACCAAG
ATGCATCTCTTCTCCCCTCGATCGTGT-------------------ACCATGCATGCATGCTTTCTCAAACTCAGAATCC
CAGATGTCTTTCCGCTTGGTTCTTGATTCTGAAGCGCT-GCTGCATGATTCTGATTCAGCTTTTTTTTAGCT---TTTTT
TGCGGGGATTCTTATTCAGGTTTCAGTTGGTAAACCTTTTAATTCTCTGGAAATGCAGTGTCGTACGTACT---------
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------------------------------------------GTATGTGGCTGAGCAGCTTGAGCTGCATGCAGCTGTTT
TTTTTGTTTTTTTTGCTTTTTGCCAGAATCAGCAGTGCATGCATGGCATCGACAGGTTCATTTTTTGCCCAGCTGA----
-----------------------------ACCTTGCAGTTCACTGCCCGCCGTGCCGACTACAAGGCAGAAACCCGGGCC
CGCCTTATCTGAGCTTGGTGGAGCGGAGTGGCTATCCCGGCATGCACGTCGCCATCTTATCTTCCGGGGAAGGAAGAAGC
TTTCGGCTTTGTGCGGCCGCAGATCGACGCCGCGCGAGCGCGCTCCAATCCATATCACTCCGCTAGCGATACGTACGCCG
AGCTTCACTTCACCG---GATCCAGCCGACAACCACGCAAACAAAAAATGGCCGCCGCTCCCTCCCCCGCCGTCGCCGCC
GTCAGCAGCAGCACGCCCTCGTCGGGGCTCCTGCCGCCGCGGC------------GCAGCGCC-----------------
-GTCCCGCTGCCGTCGATGGGGAGCAGCAGGGCGGCGGCGCCCGGGGGCAGGATGGCGACGGTGGCGCGCGCGGTGGGCG
ACGTGGCCGCGGAGGGCAACACGTACCTCATCGCCGGCGCCGTGGCCGTGGCGCTCGTCGGCACCGCCTTCCCCATCTTC
TTCTCCCGCAAGGACACGTACGTGGTCGAGCGTTGAAGGCTCGATTGGTTGCCATCTGCCTGTGTGCATACAATTGATCA
GTGGATGACGGTGT------TGCGTGCAGGTGCCCCGAGTGCGACGGCGCCGGGTTCGTGCGCAAGTCCGGCGCGACGCT
GCGGGCGAACGCGGCGAGGAAGGACCAGGCGCAGATCGTGTGCGCCAACTGCAACGGCCTCGGCAAGCTCGGCCAGATCG
ACAAGTAGAGCCTCCCCTAATCGATGTCTCTTCTTCTCCACTCCTTGCACGTACCCTTGCTGCATC-------------C
CGTCCCGTCGATCGATCTCTGCTTCGTCTTCCTCGTC-TCCTCCTCCCCTGTG--CTTGCAGTTCAGTGGGACGCAGGAA
TCCTACAGGAACTG------ATCCATATAGAGAAGATCGAGGTCCCGTAGAATTCCCGGGTTCCCAACTGCA---CATCC
TTCACTGTGGTTTTCGTTCCTTTTT--------TTTGCGTGCGTTCGCTGGTTTTCGTTCTTTCTTTTACCGTGTTGTGT
TAATAACTGTCTGCATATGTGTAGATATGTATATGCTTTGTGTAATGTATAGACATATGCTTTGTGTACCTGTAATGCTG
TAACTGTATTTGTGTGGACTGTTGA-GGTATATGTACCGTAAGTGCGGGGCTTTGCTAGATCCATGTAGCTTGTTTACGA
GGTGTAGGATTATCGGTACGTACGTGCGTGTATGACACAATGTACTAATGTGGA--------------------------
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>chr1D_2
-CTTCCGTGGATCTCGACGCGGAGTGGACCGAGCGGGAGAAATTTTGTGGGAGT-CCTGAATGTGGTTGGGCGAGGGAGA
GAGTGAGTGGTCTGTGGGTTGTGCGGCTACGGTTTTGTGACTTTCATTCACGACACTCATGCCCCACATGGCATATACGT
ACATATATAGCCTGGTATACGAGGTTTTATCAAAGTTTTTGATTTTCTCAAAATAAAAAAAA-G----------------
--------GCCAACCAAAGGTTTGAAAGTCTAAC----CATATGCATGATTGGTGAGGGGAAGAG--------CGTGGGG
AGATGACGACATGATGGCAAATGAAATGTCATCATCCGGATGAAATGCTCCGGCAGCTATACCAGTCCAACTGCGTACTG
ATAAACTATCCTGCCATTCTTCTATATATATGTAGCTCATGGAAACATCGCCTGATTAATTGTTCTGTCCCACGACCAAG
GTGCATCTTTTCTCCCCTCGATCGTCTACTACACGTCCGAGCCGCCACCATGCATGCATGCTTTCTCAAACTCAGAATCT
TGCATGTCTTTCCGTTTGGTTCTTGATTCTGAAGCGCTTGCTGCATGATTCCGATTCAGCTTTTTTTTTTCTAGCTTTTT
TGCGGGGATTCTGATTCAGGTTTCATTTGGTAAAACTTTTAATTCTCTGGAAATGTAGTGTCGTATGTACTACTCTGTGT
TTTGATTTTCGGTTTGAGATTTTTCTCGCCCCAAGCCGAGATGGCCGAATTTTGGCTATTTAAAAAAATGTAGGCCGACA
TTTGACTGAAATTTGACCAAAATTTGACAATTTTGACCATTTTCGGCCTAAAGATATATTTCGCCACAGACCGAGATGGC
CGAAATCCGTTTTTTGGGCGGAAATTCAAAACACAGGTACTACTATGTGGTTGAGCAGCTTGAGCTGCACGCAGCTGATT
ATTTG-------------TTTGCCAGAATCAA---TGCATGCATGGCATTGACAGGTTCATTTTTTGCCCAGCTGAACCT
TGCATTTTTCTCTGTGTGAG----------------AGTCCACTGTCTGCCCTGCCGACTACCGGGCAGAAACCCGGGCC
CGCCTTATCTGAGCTCAGTGGAGCGGAGTGGCTATCCCGGCATGCACGTCGCCATCTTATCTTCCGGGGAAGGAAGAAGC
TTTCAGCTTTGTGCGGCCGCAGATCGACGCCGCGCGCGCGCAGTTCAATCCATATCACTCGGCTAGCGCTACGTACGCCT
CGCTTCACTTCACCAGCAGATCCAGCCGACAACCCCCGCAAGCAAACAATG--GCCGCTCCCTCCCCCGCCGTCGCCGCC
GTCAGCAGCAGCGCGCCCTCGTCCGGGCTCCTGCCGCCGCGGCGCGCGGCACCGTGCAGCGCC-----------------
-GTCCCGCTGCCGTCGATGAGGAGCA---------CGGCGCCGGGGGTCAGGATGGCGACGGTGGCCCGCGCGGTGGGCG
ACGTGGCCGCGGAGGGCAACACGTTCCTCATCGCCGGCGCCGTGGCCGTCGCGCTCGTCGGCACCGCCTTCCCCATCTTC
TTCTCCCGCAAGGACACGTACGTGGCCGAATGAAAAAGGACCAAATCGCGATCGAGCGTGGCTTATGATGTGGTACGCTG
ATGCTCTTTTGCCACATGCGTGCGTGCAGGTGCCCCGAGTGCGACGGCGCCGGGTTCGTGCGCAAGTCCGGCTCGACGCT
GCGGGCGAACGCGGCGAGGAAGGACCAGGCGCAGATCGTCTGCGCCAACTGCAACGGACTCGGCAAGCTCGGCCAGATCG
ACAAGTAGAGCCTCCTG-------------------------------------CTGCGCATATATGTACATCGATCCGC
CGTCCCGTCGATCGATCGTTTCTTCGTCTTCCTCCTCCTCCTGCTCCCCTG--TTCTTGCAGTTTCGTGGGACGCGGGAA
TCCTACAGGAACCGATGCCCATCCATATAGAGAAGATCGAGGTCCTGTAGAATTCCCGGGTCCCAAACTGCGCACCATCC
TCCACTGTGGCTTTTGTTCTTTCTT--------TTAGCGCGTTGCGCCTGATGTGTGAG------------GTCTCGTGT
TAATAACTGCGTGCCTGTGTATACAAC--------------------TATAGATATATGC--------------------
--------TTTGTGTGGACTGTGGAGGTACAT------------------------------------------------
-------------------GTACGAGCGTGTATGACACAATGTACTGAATTCTAACGGGATTGCTAAATCTCAGTCA---
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>SNPs
----------------SSS----------------SS------------------S-S-----S--SS------------
--S----S---S----------------------------S--------------------S--------S-S---S-SS
S-----------S--------S-------S-----S---S-----------S-SS--------SSSSSSSSSSSSSSSSS
SSSSSSSS-----S----------S------S--------S--------S----SS-----------------S------
---------------------S--------------------------------------------------------S-
------S--------S---S---S-S-------------------------------------------S------S-SS
---------------------------------S----S---S------------------------------S-S----
--------------------------------S-S---------------------------------------------
-----------------------------------------------------SSSSSSSSS------------------
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---------------------------------------S--------------------SSSSS-SS-SSS-SSSSSS-
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-----------S--------SSSSSSSSS---SS-------S------------------S----S--------------
-S-----------------------------------------------SS--------------SSS------------
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--------------------------S--------S-----S--S----------------S--S---------------
--------S---------------------------S--------------------SSS--SSSSSSSSSSSSSSSSSS
S----S------------S-----SS----------S-------------------------------------------
------SS--------------------------------------------------------S---------------
------------------------------------------------S----S---S----S----------S------
--S----------S------------------------------------------------------------------
------------------------------------------------------------------------S-------
--------------------S---S---S-------------S-SS--SSSSSS--------------S-----------
--------------S----S--------------------S-----------S-----------S---------------
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-----S---S-----S---------SSSSSSSS---S-----------S-------------------------------
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-----------S-------S---------S--------------------------------------------------
------------------------------------------------------S----------------S-----SSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
>forward_64
--------------------------------------------TTGTGGGAGTGTCCGAATGG----------------
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>reverse_1865
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------------------------CGTCCCTTCTCCACTTCACG------------------------------------
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