>input_sequence_78536
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------------------------------------------------------------------------ATG--GCC
GCTCCCTCCCCCGCCGTCGCCGCCGTCAGCAGCAGCGCGCCCTCGTCCGGGCTCCTGCCGCCGCGGCGCGCGGCACCGTG
CAGCGCC------------------GTCCCGCTGCCGTCGATGAGGAGCA---------CGGCGCCGGGGGTCAGGATGG
CGACGGTGGCCCGCGCGGTGGGCGACGTGGCCGCGGAGGGCAACACGTTCCTCATCGCCGGCGCCGTGGCCGTCGCGCTC
GTCGGCACCGCCTTCCCCATCTTCTTCTCCCGCAAGGACACGTACGTGGCCGAATGAAAAAGGACCAAATCGCGATCGAG
CGTGGCTTATGATGTGGTACGCTGATGCTCTTTTGCCACATGCG--------------------TGCGTGCAGGTGCCCC
GAGTGCGACGGCGCCGGGTTCGTGCGCAAGTCCGGCTCGACGCTGCGGGCGAACGCGGCGAGGAAGGACCAGGCGCAGAT
CGTCTGCGCCAACTGCAACGGACTCGGCAAGCTCGGCCAGATCGACAAGTAG----------------------------
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>chr1D_1_TraesCS1D01G030500
ATTGGTGAGGGGAAGAGCGTGGGGAGATGACGACATGATGGCAAATGAAATGTCATCATCCGGATGAAATGCTCCGGCAG
CTATACCAGTCCAACTGCGTACTGATAAACTATCCTGCCATTCTTCTATATATATGTAGCTCATGGAAACATCGCCTGAT
TAATTGTTCTGTCCCACGACCAAGGTGCATCTTTTCTCCCCTCGATCGTCTACTACACGTCCGAGCCGCCACCATGCATG
CATGCTTTCTCAAACTCAGAATCTTGCATGTCTTTCCGTTTGGTTCTTGATTCTGAAGCGCTTGCTGCATGATTCCGATT
CAGCTTTTTTTTTTCTAGCTTTTTTGCGGGGATTCTGATTCAGGTTTCATTTGGTAAAACTTTTAATTCTCTGGAAATGT
AGTGTCGTATGTACTACTCTGTGTTTTGATTTTCGGTTTGAGATTTTTCTCGCCCCAAGCCGAGATGGCCGAATTTTGGC
TATTTAAAAAAATGTAGGCCGACATTTGACTGAAATTTGACCAAAATTTGACAATTTTGACCATTTTCGGCCTAAAGATA
TATTTCGCCACAGACCGAGATGGCCGAAATCCGTTTTTTGGGCGGAAATTCAAAACACAGGTACTACTATGTGGTTGAGC
AGCTTGAGCTGCACGCAGCTGATTATTTG-------------TTTGCCAGAATCAA---TGCATGCATGGCATTGACAGG
TTCATTTTTTGCCCAGCTGAACCTTGCATTTTTCTCTGTGTGAG----------------AGTCCACTGTCTGCCCTGCC
GACTACCGGGCAGAAACCCGGGCCCGCCTTATCTGAGCTCAGTGGAGCGGAGTGGCTATCCCGGCATGCACGTCGCCATC
TTATCTTCCGGGGAAGGAAGAAGCTTTCAGCTTTGTGCGGCCGCAGATCGACGCCGCGCGCGCGCAGTTCAATCCATATC
ACTCGGCTAGCGCTACGTACGCCTCGCTTCACTTCACCAGCAGATCCAGCCGACAACCCCCGCAAGCAAACAATG--GCC
GCTCCCTCCCCCGCCGTCGCCGCCGTCAGCAGCAGCGCGCCCTCGTCCGGGCTCCTGCCGCCGCGGCGCGCGGCACCGTG
CAGCGCC------------------GTCCCGCTGCCGTCGATGAGGAGCA---------CGGCGCCGGGGGTCAGGATGG
CGACGGTGGCCCGCGCGGTGGGCGACGTGGCCGCGGAGGGCAACACGTTCCTCATCGCCGGCGCCGTGGCCGTCGCGCTC
GTCGGCACCGCCTTCCCCATCTTCTTCTCCCGCAAGGACACGTACGTGGCCGAATGAAAAAGGACCAAATCGCGATCGAG
CGTGGCTTATGATGTGGTACGCTGATGCTCTTTTGCCACATGCG--------------------TGCGTGCAGGTGCCCC
GAGTGCGACGGCGCCGGGTTCGTGCGCAAGTCCGGCTCGACGCTGCGGGCGAACGCGGCGAGGAAGGACCAGGCGCAGAT
CGTCTGCGCCAACTGCAACGGACTCGGCAAGCTCGGCCAGATCGACAAGTAGAGCCTCCTG-------------------
------------------CTGCGCATATATGTACATCGATCCGCCGTCCCGTCGATCGATCGTTTCTTCGTCTTCCTCCT
CCTCCTGCTCCCCTG--TTCTTGCAGTTTCGTGGGACGCGGGAATCCTACAGGAACCGATGCCCATCCATATAGAGAAGA
TCGAGGTCCTGTAGAATTCCCGGGTCCCAAACTGCGCACCATCCTCCACTGTGGCTTTTGTTC--------TTTCTTTTA
GCGCGTTGCGCCTGATGTGTGAG------------GTCTCGTGTTAATAACTGCGTGCCTGTGTATACAACTATAGATAT
ATGC--------------------------------------------------------TTTGTGTGGACTGTGGAGGT
ACAT-------------------------------------------------------------------GTACGAGCG
TGTATGACACAATGTACTGAATTCTAACGGGATTGCTAAATCTCAGTCACTCAGACTCATTCCATGTTATATTGGTGAGA
TTTTACATGAAGATCCATGCACAAAAGAAAAAAAATCTTTTTTTTTCTTTTTAAATGTTATGTCACATGACTGAGACTTG
GTTAATTTTCAGTCGAGTGAGATCTAGCCACACCCAATGTGAAACGTGCTGCACGGCAGGAACTGCAGGCTGCAGCGCTG
CTGT---------------------------------------------------------------GTGGTATCCTCAT
CCCCGT----ATCGGAGCGAGGAAAGATGAGACTGTAATGGAGGCAGAGAGAGCAGCAACGTGGCCCCCTTAGAGCATCT
CCAATAGATGGTCCAAAACCGGAGATGTAAAATTTGGACCGTCAAAAAGTGCGTTTTGGAGCTCCGAAAAAACCTCAACT
CCAACAGATGGTCAAAATTGATGGTTCAAAAGAGCAACTCCAATAGATGGTCCAAAATGAAGATGTATAAATTTCTTAAA
ACGACATACTACTAGTCCATTCAACATAGTTCAAACATCAAATTCAACATAGTTTCATACATGAACTTCAACTACTACAT
ATTCAAACTACTAGATAAACTACTCCTCATCGTCGGAACTGCGCCCAGAACTCCTCCTTCGTCGGGTCGTTGCACCCTTC
CTCCTCCTCCTCCTCCTCGTC
>chr1A_3
TGGTTG--GGGGAAGAGTGTGGGGAGATGACGACATGATGGCAAAGGAAATGTCATCATCCCGATGAAATGTTCCGGCCG
CTATACCAGTCCAACTGCGTGCCGATAAACCATCCTGCCGTTCCTCTCTCTATATATAGCTCATGGAAACATCGCCTGAT
TAATTGTTCTGTCA-ACGACAAGAATGCATCTCTTCTCCCCTCGATCGTCTACTACATGTCCAAGCTGCCACCATGCATG
CATGCTTTCTCAAACTCGGTATCTTGGATGTCTTTCCGTTTGGTTCTTGATTCTGATGAGC-TGCTGCATGATTCTGATT
CAGCTTT---------------------------CTGATTCAGGTT---TTTGGTAAAACTTTTAATTCTCTGGAAAGCA
GTGTATGTA-----------------------------------------------------------------------
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------------------------------------------------------------GTAGTAGTATGTGGTTGAGC
AGCTGATTATTAAAAAAAAATCC-----------------------CCAGAATCAG---TGCATGCAT------------
------------------------------TTTCTTTGTGTGAGCTTCCAGTGACCGAGCAGTCCGCTGTCCGCCGTGCC
GACTGCCGGTCAGAAACCCGGGCCCACCTTATCTGAGCTCGGTGGAGCGGAGTGGCTATCCCGGCATGCACGTATCCATC
TTATCTTCCCTAGAAGGAAGAAGCTTTCAGCTTTGTGCGGCCGCAGATCGACGCCGCGCGCGCGCAGTCCAATCCATATC
ACTCCGCTAGCGCTACGTACGCCTCGCTTCACTTCACCAGCAGATCCAGCGGACAACCCAGGCAAAAACACAATG--GCC
GCTCCTTCTCCCGCCGTCGCCGCCGTCAGCAGT---GCGCCCTCGTCCGGGCTCCTGCCGGCGCGGC------------G
CGCGGCGCCGTGCAGCGCCGTCCAGGTCCAGCTGCCGTCGATAAGGAGAG---------CCGCGCCGGGGGGCAGGATGG
CGACGGTGGCGCGCGCGGTGGGCGACGTGGGGGCGGAGGGCAACACGTACCTCATCGCCGGCGCCGTGGCCGTCGCGCTC
GTCGGCACTGCCTTCCCCATCTTCTTCTCCCGCAAGGACACGTACGTGGCCGAATGAAAAAGGACCAAATCGAGATCTTG
CATGGCCTTTGATGTGGCACGCTGATACTCTTTTGCCGCATGCG--------------------TGCGTGCAGGTGCCCC
GAGTGCGACGGCGCCGGGTTCGTGCGCAAGTCCGGCTCGACGCTGCGGGCGAACGCGGCGAGGAAGGACCAGGCGCAGAT
CGTGTGCGCCAACTGCAACGGACTCGGCAAGCTCGGGCAGATCGACAAGTAGAGCCTCCCCTAAGCGACGTCC---CTTC
TCCACTTCACGCCTCCTTCTGCGCATATATGTGCATCGA-------TCCCGTCGATCGGTCGCGTCTTCGTCTTCCTCCT
C-TCGTCCTCCCCTGTTTTCTTGCAGTTGCGTGGGACGCAGGAATCCTACAGGAACTG------ATCCATATAGAGAAGA
TCGAGGTCCTGTAGAATTCCCGGGTTCCCAACTGCA-----TCCTTCACCGTGATTTTTCTTCTTTCTTAGTTTCTTTTA
CCGCGTTGCGCCGGATGTGTGAG------------GTCTCGTGTTAATAACTGTGTGCCTGTGTA--------TAGATAT
ATGC--------------------------------------------------------TTTCTGTGGACCGTGGA-GT
ATAT-------------------------------------------------------------------GTACGTGCG
TGTATGACACAATGTACT--------------------------------------------------------------
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-----------------------------------AATGTGGAGCGGGATTGCTAAATCTGAGTCA--------------
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>chr1B_12
-----------GAAGAGCGTGGGGAGATGACGACATGATGGCAAATGAGATGTCATCATCCCGATGAAATGTTCCGGCCG
CTATACCAGTCCAACTGCGCGTTA----------------------TATATAAATATAGCTCGTGGAAACATCGCCTGGT
TAATTGTTCTGTCCCACGACCAAGATGCATCTCTTCTCCCCTCGATCGTGT-------------------ACCATGCATG
CATGCTTTCTCAAACTCAGAATCCCAGATGTCTTTCCGCTTGGTTCTTGATTCTGAAGCGC-TGCTGCATGATTCTGATT
CAGCTTTTTTTTAGCT---TTTTTTGCGGGGATTCTTATTCAGGTTTCAGTTGGTAAACCTTTTAATTCTCTGGAAATGC
AGTGTCGTACGTACT-----------------------------------------------------------------
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------------------------------------------------------------------GTATGTGGCTGAGC
AGCTTGAGCTGCATGCAGCTGTTTTTTTTGTTTTTTTTGCTTTTTGCCAGAATCAGCAGTGCATGCATGGCATCGACAGG
TTCATTTTTTGCCCAGCTGA---------------------------------ACCTTGCAGTTCACTGCCCGCCGTGCC
GACTACAAGGCAGAAACCCGGGCCCGCCTTATCTGAGCTTGGTGGAGCGGAGTGGCTATCCCGGCATGCACGTCGCCATC
TTATCTTCCGGGGAAGGAAGAAGCTTTCGGCTTTGTGCGGCCGCAGATCGACGCCGCGCGAGCGCGCTCCAATCCATATC
ACTCCGCTAGCGATACGTACGCCGAGCTTCACTTCACCG---GATCCAGCCGACAACCACGCAAACAAAAAATGGCCGCC
GCTCCCTCCCCCGCCGTCGCCGCCGTCAGCAGCAGCACGCCCTCGTCGGGGCTCCTGCCGCCGCGGC------------G
CAGCGCC------------------GTCCCGCTGCCGTCGATGGGGAGCAGCAGGGCGGCGGCGCCCGGGGGCAGGATGG
CGACGGTGGCGCGCGCGGTGGGCGACGTGGCCGCGGAGGGCAACACGTACCTCATCGCCGGCGCCGTGGCCGTGGCGCTC
GTCGGCACCGCCTTCCCCATCTTCTTCTCCCGCAAGGACACGTACGTGG--------------------------TCGAG
CGTTGAAGGCTCGATTGGTTGCCATCTGCCTGTGTGCATACAATTGATCAGTGGATGACGGTGTTGCGTGCAGGTGCCCC
GAGTGCGACGGCGCCGGGTTCGTGCGCAAGTCCGGCGCGACGCTGCGGGCGAACGCGGCGAGGAAGGACCAGGCGCAGAT
CGTGTGCGCCAACTGCAACGGCCTCGGCAAGCTCGGCCAGATCGACAAGTAGAGCCTCCCCTAATCGATGTCTCTTCTTC
TCCACTCCTTGCACGTACCCTTGCTGCATC-------------CCGTCCCGTCGATCGATCTCTGCTTCGTCTTCCTCGT
C-TCCTCCTCCCCTGTG--CTTGCAGTTCAGTGGGACGCAGGAATCCTACAGGAACTG------ATCCATATAGAGAAGA
TCGAGGTCCCGTAGAATTCCCGGGTTCCCAACTGCA---CATCCTTCACTGTGGTTTTCGTTC--------CTTTTTTTT
GCGTGCGTTCGCTGGTTTTCGTTCTTTCTTTTACCGTGTTGTGTTAATAACTGTCTGCATATGTG--------TAGATAT
GTATATGCTTTGTGTAATGTATAGACATATGCTTTGTGTACCTGTAATGCTGTAACTGTATTTGTGTGGACTGTTGA-GG
TATATGTACCGTAAGTGCGGGGCTTTGCTAGATCCATGTAGCTTGTTTACGAGGTGTAGGATTATCGGTACGTACGTGCG
TGTATGACACAATGTACT--------------------------------------------------------------
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-----------------------------------AATGTGGAACCTGCTGCCCGGCAGGAGCTGCAGGCTGCACGCTAG
AATCTGTAATATGCTGGCTAAGTTGTAATGGATCAGAAACAACTCTACCCCCCTGCACCACGTCAGCGTGGTATCCTCAT
CGGCGAATTAATCGGGGCGAGGAAAGATGAGACTGTAATGGAGGCAGAGAGAGCAGCAACGTG-----------------
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>SNPs
SSSSSSSS-----------------------------------------------------S---------S------S-
--------------------S---------S--------S---S-----------S------------------------
------------------------S-------S------------------------S----S---S-------------
--------------------------S----------------------------------S-------------S----
------------SS--SSS------------------------------------------------------------S
---------S-----SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS---S--S-------------
-------------S-------S--S---S--------------------------S-----------------S------
--------------------SSSSSSSSSS-----S-----------------------------------S---S----
----------------------------------------S---------------------------------------
--------------------------------------------------------------------S-----------
----S-------------------------------------------------------S----SS-------------
-------------------------------------------------------------------SSSSSSSSSSSS-
-----------------------------------------------------------------------S--------
----------S-------------------------------------S-------------------------------
------------------------------------------------------------------------S-------
------S-S--------S--------S-----------------------------------------------------
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---S-------------------------------------------------------SS-------------------
--------------------------------S------SSSS-------------------S-----------------
-S----S---------------------S----------S----------------S-SSSSSS----------------
-------------------------S--S------SSSS------S--------S-------------------------
-----------------------------------------------------S-----------SSSSSSSS-------
-----------------------------------------------------------------------------S--
-S--------------------------------------------------------------------------S---
------------------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS------S----------S---------------------SSSSS-
SSSS----------------------------------------------------------------------------
-SS--S---------S-----------------------------------------------SSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSS
>forward_591
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-----------AGACCGAGATGGCCGAAATC-------------------------------------------------
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>reverse_2274
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---------------------------------CCAATGTGAAACGTGCTGCA---------------------------
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