>input_sequence_76622
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------------------------------------------------ATGGATCAGCGGGCGGCCTGCGGCGGCGAAGC
AGGGGGCGTCCAGCGGCGGCGCCCGTACAAGGGCGTGAGGCGGCGGCAGTGGGGGAAGTGGGTGTCGGAGATCCGGGTGC
CCGGGACGCGGGAGCGCCTGTGGCTCGGCTCCTACGCTACCGCCGAGGCGGCCGCCGTCGCGCACGACGCCGCCGTCTGC
CTCCTCCGCGGCGGCGCC---GGCGGCCTCAACTTCCCGGGCCGCGCCGCCGCCTACGGCCACGTCCTTCGCCATGGCGT
------CCAGCAGCTTTCGCCACGCTCGGTCCAGCGCGTGGCGTCCGACGCTGGCATGGCCGCCGACGCGCAGCTTGTGG
AGCTGCGCGAGCGTGCCCCCGCGTCGCCCGGCCAGGAGACGACGCCATCCGCTGGCATTGGCGCTGTGCATGGTGGTGCG
GGCGCCGGAGAGCAGGTGTTTTACGG------TGGTACGAGGAGCTGCAGCCCCGGCAGCGAGCAGCTTGTCTATGGGGA
GCTGAGTGTGGACGACATGGAGATCGTGACCATGTTGCAGTCATTGTAG-------------------------------
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>chr1B_1_TraesCS1B01G273700
AACAGCTTGGGCCGAGGCCCGTACACGTTCAAACCACGCCCTGAACCTTGCCGCCGCTCTTAAACGGACGCGATCCAATC
TTAAAGGATGGAGGCGATCTGCTATTCCTCTGAACACCCGTGAAAAGAATTGCAAAACCGTTATCCCTGTTTTCGATATT
ATTGAGGAATCTCGCTTTCTATCGCCCCTCGAACTTGCCCTTCGCCGGGTTATCATTAAAGTTTTACAACGCACTCTTCG
TGAGAAGGCGTTGTACTGGATCCATCCCATTATCTGACTGAATAACAATTTTATTTAGACCCATATGTTCAGCAAACCAT
AAACCATCTCCATCTCTAGTTGCCACTACTCGACGTGGAGCCTCCGTCGCCTGCCTGCACCGGCGCGCGGTGCGGCCGAC
ATCACAGTCAGGTCTTTGCTGTTTCATCTCCCT--TGGCCCTCGCCCCGGTCCCACCCCT--------------------
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---------------------------------------------------------------------------TGGCG
GGCCCGGCAAATGATCCACCGCGAGAGCATTTCAGCCACGAAGGCAAGACGAAACCCACCACTG---GAGCTCTAGA--A
GAGATCAAGCAAGAGCACACTCGGTCACTCGCTCACAGTTTGACCATTGAATATTTTGACCACGACCC----ACGCCACG
CAAGACTGATCGATTAGCTGTAAACTGCGCAAGCCACGTCCGTAGACCACATGCGCAAATTGAGCACATCTGGATTTTGA
CCGAGCTGGCGTGGAATTTTTTTCCCCGGCTGCCTCTCGTCTCGATATTTTATTAT------------------------
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-----------------TTATTTCACACCCGAAAATGTCAACCCCCCACT-GGCGCTGACTTCCCGATCGATCGACGCCT
ATAAATACGCGCACGCATGTGCACGAGCCATTCAG------CAACTCCAAGCGCCTCCGTCCTACGTACCC---------
-ACGCACTGGCGTCGTCTCGCGAGATCGACGGAGCCCAGCTGAGCTAAGGCGCGCGAGCGAGCGATCGGTCCGCCGCCGT
GCCTCGCCGGAGAGTGGCGGTATACGCACGCTTCGAC----CATTGTAATGGATCAGCGGGCGGCCTGCGGCGGCGAAGC
AGGGGGCGTCCAGCGGCGGCGCCCGTACAAGGGCGTGAGGCGGCGGCAGTGGGGGAAGTGGGTGTCGGAGATCCGGGTGC
CCGGGACGCGGGAGCGCCTGTGGCTCGGCTCCTACGCTACCGCCGAGGCGGCCGCCGTCGCGCACGACGCCGCCGTCTGC
CTCCTCCGCGGCGGCGCC---GGCGGCCTCAACTTCCCGGGCCGCGCCGCCGCCTACGGCCACGTCCTTCGCCATGGCGT
------CCAGCAGCTTTCGCCACGCTCGGTCCAGCGCGTGGCGTCCGACGCTGGCATGGCCGCCGACGCGCAGCTTGTGG
AGCTGCGCGAGCGTGCCCCCGCGTCGCCCGGCCAGGAGACGACGCCATCCGCTGGCATTGGCGCTGTGCATGGTGGTGCG
GGCGCCGGAGAGCAGGTGTTTTACGG------TGGTACGAGGAGCTGCAGCCCCGGCAGCGAGCAGCTTGTCTATGGGGA
GCTGAGTGTGGACGACATGGAGATCGTGACCATGTTGCAGTCATTGTAGTTGTAGATCGTCAAATTTTGCAGACCAATAG
TGTTGCAGAACCAGCAAGTTTTTTTTTGGCAT-----AAAAAATCAGCAAGTATATATGATAGTACAGGTGCTCGTTTTC
GAAATCCGATGACATGGCACTTTACACGTTTTCATCCTTTTTTTCGTCGACTTTACAAAATCTGACTGTGACCAGAGAAT
GCATATAACAAAATTATTGAAAAAACACAACAACCAACTATGGTAAAATCTGACTGAGATCAGAGAATGCATATAACAAA
ATTATTGAAAAAACACAACAACCAACTGTGGTTGTCATCCGCTATAAACCTCGGTACCCGACAACGATCTTCAACTTCAT
TGCCGGTGCCTTTGATAAAACCTGGAATCGCCAGGTACTCCAAAACAACACATCCAAGAAGAGAATGACACATATATGTC
CACGGTGAGCGGATTCGAGAAAACTCCAAAAGTCGTCTTCACCAAGAAAACAATGCATCCGAGCATGCCTCCTACGCCCC
TAATAAAACTCATGTTTGTCCTCGTCCCGATCTCCTCGATCTTGACTGGTTCCTCTACCCCAGCTCGTGCCCCCGACGAT
CGCCACTCTGAGCAGGGGCGTACCTAGGTTATACTACCAGGTTGCATAGAACACCAGGTCAAAAATCCTTTTCCTTCA--
--TACAGTTATCCATACATTGGTGTGTGACACTCTCGACTGTAGGTGAAAAGCATACGTCAGTTGTAGATTGCCACAT--
---GGTTGTTTTCACTCTAGGTCCACCCCTGGCTCTGAACGCCTCCACCCTAGCTCCAACCTTGTTATCGACAAGAGCGA
GGTCATCGTTCTAGGTTACCCTGCTGAGGACCAACAGAGGATTGCGGATAATCTCAATTGCAGGCTAACATCCTTCCCCA
TTACATACTTGGGGATGCCGTTGGCAGACTCAAAGATCCTGACAAGTGCATTCGACCCGCTAGTGGGACGGGTGGCCTCT
CGGGTTGAGACCTGGCGAGGACG
>chr1D_342
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---------------------GCCACTATTCGACGTGGAGCCTCCGTCGCCTGGTTGCACCGGCGCCCGGAGCGGCCGAC
ATCACAGTCAGGTCCTTGCTGTTTCATCTCCCTCTTGGCCCTCGGC-----CCCACCCCT--------------------
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---------------------------------------------------------------------------TGGCG
GGCCCGGCAAATGATCCACCGCGAGAGCATTTCAGCCACGAAGGCAAGACGAAACCCACCACTAGAAGAGCTCTAGA--A
GAGATCAAGCAAGAGCACACTCGGTCACTCGCTCACAGTTTGACCATTGAATATTTTGACCACGACCC----ACGCCACG
CGAGACTGATCGATTAGCTGTAAACTGCGCCAGCCACGTCCGTAGACCACATGCGCAAATTGAGCATATCTGGATTTTGA
CCGAGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNTTATTTCGCACCCAAAAATGTCAACCCCCCACT-GGCGCTGACTTCCCGATCGATCGACGCCT
ATAAATACGCGCACGCATGTGCACGAACCAATTCAGGAAGAGAACCCCAAGCGCCTCCATCCAGCATTCGAGCACGTACG
TACGCACTAGCGTGGCCTCGCGAGATCGACGGAGTCCAGCTAAG---------GCGAGGGATCGGTTGC-CCGCCGGCGT
GCCTCGCCGGAGAGTGGCGGTATACGCACGCTTCGA----CCATTGTGATGGACCAGCGGGCGGCCTGCGGCGGCGAAGG
AGGGGGCGTCCAGCGGCGGCGGCCGTACAAGGGCGTGAGGCGGCGGCAGTGGGGGAAGTGGGTGTCGGAGATCCGGGTGC
CCGGGACGCGGGAGCGCCTCTGGCTCGGCTCCTACGCCACCGCCGAGGCGGCCGCCGTCGCGCACGACGCCGCCGTCTGC
CTCCTCCGCGGCGGCGCCGGCGGCGGCCTCAACTTCCCGGGCCGCGCCGCCGCCTACGGCCGCGTCCTCCACCACGGGGG
CGCGGGCCAGCTGCTCTCGCCACGGTCGGTCCAGCGCGTGGCGTCCGACGCTGGCATGGCCGCCGACGCGCAGCTCGTGG
AGCTGCGCGAGAGGGTCCCCGCGCCGCCCGGCCAGGAGACGGCGCCGGACGGTGGCATTGACGCCGTGCATGGTGGTGCT
GGTGCCGGAGAGCAAATGGCATACGGTGGTACTGGTACGAGGAGCTACAGCCCCGGAAGCGAGCAGCTCGTCTACGGGGA
GCTCAGTGTGGACGACATGGAGATCGTGACGATGTTGCAGCTAGTGTAGTTGTAGATAGTTAACTTTGGCAGATCAATAG
CGTTGCAGAACCAGCAAGTATTTATTTTTTTGGCATAAAAAAATCAGCAAGTATATATGATAGTACAGGTGCTCGTTTTC
GAAATCCGATGACATGGCACTTTACACGTTTTCATCC-TTTTTTCGTCGACTTTACAAAATCTGACTG------------
--------------------------------------------------------AGATCAGAGAATGCATATAGCAAA
ATTATTGAAAAAACACAACAACCAACTGTGGTTGTCATCCGCTATAAACCTCGGTACTCAACAACGGTCTTCAACTTCAT
TGCCGGTGTCTTTGACAAAACCTGGAATCTCCGGGTCCTCCAAAACAACACATCCAAGAAGAGAATGACACATTTGTGTC
CACAGTGAGCGGATTCAAGAAAATTCCAAATATCGTTTTCACCAAGAAAACAATGCATTCGAGCATGCCTCCTACGCCCC
TAATCAAACTCATGTTTATCCCCGTCCCGAGCTCCTCGATCTTGTCTGGTTCCTCTACCCCAACTAGTGCTCCCGAGGAT
CGCCACTCTGAGCAGGGGCGTACCTAGGTTATACTACCAGGGTGCACAGAACACCATGTCAGAAATTGTTTTCCTTCATA
AGTACATTTATCCATACATTGGTGTGTGACACTCTCAATTGTAAGTGAAAAACATACGTCATTTGTAGAATGCCACATGG
TACGGTTGTTTTCACTCTAGGTCCACCCTTGGCTCAGAACACATCCACCCTAGCTCAAGCCCTGTTATCG----------
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>chr1A_454
CCTTGGCGGGCCCGGCAAATGATCCACCACTAGGGCCTCATTCGGTTTGAAGGATTTTTTAAGGAAAAACATAGGAACAA
GGATTCCGGAGATTTTTTTTATATATATGCATTCGGTTCGTAGGAAATGCGTACAGGAATTCCATAGAAATACTACTCAT
TTCCTGTGTTTTTGGAGGAAACTACACATCCACTCAAAGCTCATTTTACGCGTAGGAACGAGGCAAGTCAAATCCTTAGG
ATAGCAAGTGTCATCCTATCAAATTCCTATACTACTCCTAATTCCTACGTTTTGATTTCCTTCAAACCGAATGAGCCCTA
GAAGATTTCACGAAGGCAAGACGAAACCCACCACTAAAACTCAACCGTACCTTTTTCAAATCTTGAACTTTTTTTAAGTT
CGTGTACTTTTTTCAAATCCGCATACTTTACTTCAACAACTCCATGAATTTGAAAACTTACGCGAACTTGTAAAAAAGTA
AGCGTATTTGAAAAAGCACACGAATTTTAAAAAACGATTGATTTGAATAAAGTACGTGGGTCTGAAAAAATTACGCGAAC
CTGAAAAAGGTATGCCCATTTGAAAAAAGTACACAAGATTTTAAAATGTTCATGAATTTGAAAAAGCACGCGAATTTGGG
AAAAGTGCGTGGACAAAAAGGTACGCAGATTTAAAATGTTCATGGATTTCAAAATATACGCAAACTTGAGCCAACGCCAG
TTGAAACGGGGTAAGACAACACACAAAACGGTCAAAATCGAAACTAGGGACGAACCTTGTCTGGTTTCAATTGTCAAGGG
TGCAAGGTTTTTTTTTTGAATGAAGGGTGCAAGTTGTCCTGTTTTAAAGTTCAGAGATTAAATCTAACTCTGACAAGAAT
TGAGGGACTCTCTCTTTTATGCAGGTGAAAGTGTCTCTCAACTGATGACAAGCAGCCACTACTCGACGTGGAGCGTCCGT
CGCCTGGTTGCAGTTGCACCAGCGCGCGGAGCGGCCGACATCACAGGCAGCTCTTTGCTGTACTTTCATCCCCCTTGGCG
GGCCCGGCAAATGATCCACCGCGAGAACATTTCAGCCACGAAGGCAAGACGAAACCCACCACTAGAAGAGCTCTAGAAGA
GAGATCAAGCAATAGCACACTCGGTCACTCACTCCCAGTCTGACCATTGAATACTTTGACCACGACCCACTGACGCCACG
CGAGACTGATCGATTAGCTGTGAACTGCGCAGGCCACGTCCGTAGACCACATGCGCAAATTGAGCATATCTGGATTTTGA
CCGAGCTGGCGTGGAATATTTT--------TGCCTCTCGTCTCGATATTTTATCAT------------------------
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-----------------TTATTTCACACCCAAAAATGTCAACCCCCCCACGGGCGCTGACCTCCCGATCGACCGACGCCT
ATAAATACGCGCCGGCATGCGCACGAACCATTCAG------GAACTCCCAGCGCCTCCACCAGTACGTGCGTC-------
----------CGTCGTCTCGCGAGATCGACGGAGTCCAGCTAAG---------GCCAGAGATCGACCGGTCTGCCGGCGT
GCCTCGCCGGAGAGCGGCGGTACACGCACGCTTCGACCGGCCATTGTGATGGACCAGCGGGCGGCCTGCGGCGGCGAGGG
AGGGGGCGGCCTGCGGCGGCGCCCGTACAAGGGCGTGAGGCGGCGGCAGTGGGGGAAGTGGGTGTCGGAGATCCGGGTGC
CCGGGACGCGGGAGCGCCTGTGGCTCGGCTCCTACGCCACCGCCGAGGCGGCCGCCGTCGCGCACGACGCCGCTGTCTGC
CTCCTCCGCGGCGGCGCCGG---CGGCCTCAACTTCCCGGGCCGCGCGGCCGCCTACGGCCGCGTCCTCCACCACGGCGG
CGCGGGCCAGCAGCTGTCCCCACGGTCGGTGCAGCGCGTGGCGTCCGACGCCGGCATGGCCGCCGACGCGCAGCTCGTGG
AGCTGCGCGAGCGTGTTCCCGCGCCGCCCGGCCAGGAGACGGCGCCGGACGGTGGCATTGGCGCAGTGCATGGTGGTGCG
GGTGCCGGAGAGCAAGTGGCCTACGG------TGGTACGAGGAGCTGCAGCCCCGGCGGCGAGCAGCTTGTCTATGGGGA
GCTGAGTGTGGACGACATAGAGATCGTGACCATGTTGCAGTCATTGTAGTTGTAGATCGTCAAATTTTGCAGACCAATAG
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>SNPs
SSSS-SSS--S---SSSSSS-SS-SSSSS-S-SSSS-S-SS-SSSSS-SSSS-SSSS-S-S-SSSSS-SSSS-SSS-SSS
SS-SSSSSSS--SSSSS-S-SSSSS-SSS-SSSSSSSS---SSS--SSSSSSSS-SSSSS-SSSSSSSSS-SSSSS-SS-
S-SSS-SSS-S-S-SSSSSS-SSS-S-S--S-SSSSSSS--SSSSSSSSSSS-SSSS-SSSSSSS-SSSSSSS-SS-SS-
SS--S-S-S--SS-S--SSSSSSS---S--SS-SSSS--S-S-SSS-SS---SSS-SSS-SSSS-SSSSS-SS-SS--SS
S--SSS-SSS-SSSSSS-SSS--------------------------------SS-----------S-------------
--------------S-----------------------------S-SSSS------------------------------
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---------------------------------------------------------------S----------------
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-S----------------------------------------------------------------S-------------
-----------------S----SSSSSSSS-----------------------S--------------------------
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------------------------------S-------------------------------------------------
--------------------------S--------------S----------------S---SS-S-S--S---------
--------S-------------------------S------S--SSSSSSSSS-----S--S--------------S---
-----------------------------------------------S-----S-------------------------S
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-------------------------------------S------------------------------------------
-------------------------------------------------------------S------S-S---S----S
---------------S--------S--------------------------------------------------S----
---------------S-------S-----------------S----SSS--S------------S---------------
--S-----------S---SSS-----------------------------------------------------------
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S------------------S---S---SSSSS------------------------------------------------
-------------------------------------S------------------------------SSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS-------------------S----
---------------------------------------------------------S-S------S-------------
--------S------S-------------S--S---S------------------------------------S-S----
---S------------S------S------SS----S---------------------S---------------------
----S------------S---S--------S-------------S-----------------S--S----S-----S---
-----------------------------------------S----S---------S----S----SS------------
------S-----------------------------S-S----S-------S---------S-------S----------
----------------------------S------S----S-S-------------S-S--S--------SSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSS
>forward_46
--------------------------GTTCAAACCACGCCCTGAAC----------------------------------
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>reverse_2421
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--------------------TTACGGTGGTACGAGGAGCT----------------------------------------
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>forward_104
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----AGGATGGAGGCGATCTGCTA--------------------------------------------------------
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>reverse_2964
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---GGTGAGCGGATTCGAGAAAAC--------------------------------------------------------
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