>input_sequence_74014
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--GAAAAAAAAATCCAGAGTCTCGCTCAAAATTTGGGGGTTTTAGACAGAACAGATCAGAGAGAGGAGAGGG-AGATGGC
GGACTGGGGCCCGGTGATCGTCGCGACGGTGCTGTTCGTGCTGCTGACGCCGGGGCTACTGTGCACGCTGCCGGGGCGCG
GGCGGGTGGCGGAGTTCGGCAGCATGCACACCAGCGGCCTCTCCATCCTCATCCACGCCGTCCTCTACTTCGCGCTCGTC
ACCATCTTCCTCATCGCCGTCGGCGTCCACGTCTACACCGGCTAGCCGGGCGCGCCCG----CCGCCAGCATCGATCGGT
TCGAGCTCCTCCGCTGGATTTTAGTTTAAGATCTGTCTGTCTGCAGAGCTATCAGCTATGGTTGTGGGGTCTTGTAATCC
AATTTGGTGGTATGTTTTTCTAAAC-TTGGTTTCATTGCAACCGGTGTTAAAAGATCGATGCTGCATACGGCGTGTTGCG
TTAT---GCTCGTATATATACGCTCGATTGAAAATTCGAGTACGGTTCGATTCGTCGTTTGTTTTTT-GCCTTCGAGTTG
TTCTGGTG-TTGGCTGAGGATTTGATTACGCTTCAAATAGGAATTTAAGAATATATTTAATATTGACTC-----------
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>chr2B_1_TraesCS2B01G300600
CCATTGTAGAGGTGATAATATAGACTAGTAACATATGCATGTTAGTAGTCTAAGGCTGGTATAGTGGGGAGTAACTTAGA
CTAGTAATTACTACCTCTATAATGCATAATACTCCCTCTCTCTCAGTTTACAGGACGTGTGCGTATCCCTAGGTCGTCAA
TTTGACCAACTTAATACAAGTCATTTATTACAAAAAATATACCAATATAAAATTCATAAGTTCTATTTTCAAACCGTATA
ATTTTTGTGTTATATAGTTTATATTAGGGTGATAAAATTGACAACCTAGGTATACGCGCAGGACTTTAAACTGAGACGGG
GAAGTATCATAGATGGTCTCATTTATTGTCATGCATGACACGTACTAGCATCACATTTATTATGTTACAGTATCTACCTA
TATTACTATAACCATCTCTCTTTTCTTAAATTGCCTGCCACATAAGCATGTTTGCGAGTCTCAAATATATGATACTACTT
ATGTTACCTCACTATGGCCAGCCTAACTTACTATTCACTATGGCTAAGCGAGCCTGATGAATGCGAACAGAGAAAGTAGT
GGCGACTAGCGAGTGATTTCGATCGGCATTCACCTGTTA----CACCTGCTGCGTCGGCGTCGGCGT-CGGTGCACCGGA
TATGTCCTCCACCGCTC----------------ATTCTTTTGTTTTTCGGCGGCCCGGACCCACGGAAGCTCCTTCTGGT
TCCTTCCATCCACGCCCACGGCAACGCGACGCAACGCACGCAAAGGTTTCCTCGACTAGAACGGAACGTATACTTTCCCC
CTCCCGATGCACAAGAGAGTAC--------C---------TAGCCAATGTCGTGTGGGCCCCAATACGTTCAGGACAACA
TTCGGCCCACATGTCACGGGCATATCAAGCGGCATGGGGAGCTGAGCTGGCGGCCACCCACTCCCCCCACTCTGCGAGCA
AAGCTGGAGAGGCACACATTAATGCGTGACCTCCCCCGTCTCCGCCGCACTGCACACACACA----TCCTGGAGAGTTCC
CAGAAAAAAAAATCCAGAGTCTCGCTCAAAATTTGGGGGTTTTAGACAGAACAGATCAGAGAGAGGAGAGGG-AGATGGC
GGACTGGGGCCCGGTGATCGTCGCGACGGTGCTGTTCGTGCTGCTGACGCCGGGGCTACTGTGCACGCTGCCGGGGCGCG
GGCGGGTGGCGGAGTTCGGCAGCATGCACACCAGCGGCCTCTCCATCCTCATCCACGCCGTCCTCTACTTCGCGCTCGTC
ACCATCTTCCTCATCGCCGTCGGCGTCCACGTCTACACCGGCTAGCCGGGCGCGCCCG----CCGCCAGCATCGATCGGT
TCGAGCTCCTCCGCTGGATTTTAGTTTAAGATCTGTCTGTCTGCAGAGCTATCAGCTATGGTTGTGGGGTCTTGTAATCC
AATTTGGTGGTATGTTTTTCTAAAC-TTGGTTTCATTGCAACCGGTGTTAAAAGATCGATGCTGCATACGGCGTGTTGCG
TTAT---GCTCGTATATATACGCTCGATTGAAAATTCGAGTACGGTTCGATTCGTCGTTTGTTTTTT-GCCTTCGAGTTG
TTCTGGTG-TTGGCTGAGGATTTGATTACGCTTCAAATAGGAATTTAAGAATATATTTAATATTGACTCGATTGTTAGCA
CCTTGTCTGGGTGGTGTAGTTGGTTATCACGTTAGTCTCACACACTAAAGGTCCCCAGTTCGAACCTGGGCTCAGACAAC
TGTTTTTTCCCCTAGTTTAATGTATTTTTGGAAACACATTTAGTTTTTTTAAGAGAAAGCCTCTCGGTATTTTATTTCTC
AGCCAACAAACTTACATCATTTGTTACAAAAGGCATAATGAAATTGGGAGGATCTCCATCCCAGCCAAAATTAGAGTACC
ATAGGAGTGCTTCGCCGAATGGTGAGCCATCTCAATTGGTTCCGTAGGACAGTGAGAATGTAACTCCTGACTCTCGCAGA
CCCCTTAAAACTACGACCCGTATAAGT---TTACGGGCTGAGAAAAACGTATTATAAGGACCGATTTTAGCTGCGACCGA
ACAGAGCCCGTATAATCAGCACGTAAAAAGGAATATTCTCTAAATATACCCACAACTAGCTTTTTTTT---CGTCATCTT
CCTCGAGGCAACTTGAAATCGATCGGCGCGGCCGCCGGCGGACAAGCGGACGAGGAAGACACGGGGCGGCCGCGGCACAC
GGACGGAGGCCAGGGCGGCCGGGGACCGGCGGCTGGCGGCCTTGGCTGCCGTCGAGAGATACGCATCTAGCTAG------
CCGTGCGAATCGATTGAGCTAGCAGCTAGCTTAGCTCCGTTCGAGAGCCGGGCGAGCGCGGCGGCTGGGTCGGGGACGAG
CGGAT----------------------------GGGAGTGACCATGAAGATTCCGATGGCAGTTAAACTCCCGTCAATGG
TCGTTCATGTATGCAGGGCCCCTTGGGCTTGACTCCGAAATCCTTATATTCACAGTTTCGGCGGGGATGTTTTCTGCGTC
CCTTAAAAAAAATTACGGGTCGAAACCGTTTACGGTTTCTATTTGGGTCGCTTTTTTCGCCGAAAACTGTGAGCCAACGG
TTATTTTACAGATTCGTACGTTACACGGGGTTTGCTAGAGATTGCTAGAGATGCTCTAAAAACGCAATG
>chr2A_525
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--------------------------------------------TAAGGGAGCCTGGTAAATGCGAACAGAGGAAGTAGT
GGCGACTAGCGAGTGATTTCGATCGGCATTCACCTGTTAGTTACACCTGCTGCGTCGGCGTCGGTGCACGGTGCACCGGA
TATGTCCTCCATTGGCGTACCCTCGAAAAAAAAATTCTTTTGTTTTTCGGCGGCCCGGACCCACGGGAGCTCCTTCTGGT
TCCTTCCATCCACGCCCACGGCAACGCGACGCAACGCACGCAAAGGTTTCCTCGACTAGAACGGAACGTATCCTTTTCCC
CACCCGATGCACAAGAGAGTACGCCTCTACC---------TAGCCAATGTCGTGTGGGCCCCAAGACGTTCAGGACAACC
TTCGGCCCACATGTCACGGGCATATCAAGCGGCATCGGAAGCTGAGCTGGCGGCCACCCACTCCCCCCACTCTGCGAGCA
AAGCTGGAGAGGCACACATTAATGCGTGACCTCCCCCGTCTCCGCCGCACTGCACACACACA----TCCCGGAGAGTTCC
CAG--AAAAAATTCCAGAGGCTCGCTCAAGATTTGGGGTTTTTAGACAGAACAGATCAGAGAGAGGAGAGGGGAGATGGC
GGACTGGGGCCCGGTGATCGTCGCGACGGTGCTGTTCGTGCTGCTGACGCCGGGGCTGCTGTGCACGCTGCCGGGGCGCG
GGCGGGTGGCGGAGTTCGGCAGCATGCACACCAGCGGCCTCTCCATCCTCATCCACGCCGTCCTCTACTTCGCGCTCGTC
ACCATCTTCCTCATCGCCGTCGGCGTCCACGTCTACACCGGCTAGCCGGGCGCGCCCGCCCGCCGCCAGCATCGATCGGT
TCGAGCTCCTCCGCTGGATTT-AGTTTAAGATCTGTCTGTCTGCAGAGCTATCAGCGATGGTTGTGGGGTCTTGTAATCC
GATTTGGTGGTACGGTTTT--AAACTTTGGTTTCATTGTAACCGGTGTT-AAAGATCGATGCTGCGTACGGCGTGTTGCG
TTATTATACTCGTATATATAGGCTCGATTGAAAATTCGAGTACGGTTCGATTGGTCGTTTG--TTTT-GCCTTCGAGTTG
TTCAGGCG-TTGGTTGAGGTTCCGATTACACTTCAAAGAAGAATATATAAAAAAATTGCCTCAGCG-------GTTAGCA
CCTCGTCTGGGTGGTGTAGTTGGTTATCACGTTAGTCTCACACACTAAAGGTCCCCAGTTCGAACCTGGGCTCAGACAAA
TTTTTTTCCAATTTTA-------ATTTTTGAAAACACATTCAG-------------------------------------
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>chr2D_530
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-------------------------------------------------GAGCCTGCTAAATGCGACCAGAGGAAGTACT
A--GACTAGCGAGTGATTTCGATCGGCATTCACCTGTTA----CACCTGCTAGGTCGGCGTCGGTGCACC----------
----------ACCGCTC----------------ATTCTTTTGTTTCTCGGCGGCCCGGACCCACAGGAGCTCCTTCTGGT
TCCTTCCATCCACGCCCACGGCAAGGCGACA---------CAAAGGTTTCCTCGACTAGAACGGAACGTATCCTTTCCCC
CTCCAGATGCACAAGAGAGTACGCCTCTACCTACTACCTATAGCCAATGTCGTGTGGGCCACAATACGTTCAGGACAACA
TTCGGCCCACATGTCACGGGCATATCAAGCAGCACGGGAATCTGAGCTGGCGGCCACCCACTCTCCCCACTCTGCGAGCA
AAGCTGGAGAGGCACACATTAATGCGTGACCTCCCCCGTCTCCGCCGCACTGCACACACACACACATCCCGGAGAGTTCC
CAG--AAAAAAATCCAGAGGCTCGCTCAAGATTTGGTTTTTTTTGACAGAACAGATCAGAGAGAGGGGAGGGGAGATGGC
GGACTGGGGCCCGGTGATCGTCGCGACAGTGCTGTTCGTGCTGCTGACGCCGGGGTTGCTGTGCACGCTGCCGGGGCGCG
GGCGGGTGGCGGAGTTCGGGAGCATGCACACCAGCGGCCTCTCCATCCTCATCCACGCCGTCCTCTACTTCGCGCTCGTC
ACCATCTTCCTCATCGCCGTCGGCGTCCACGTCTACACCGGCTAGCCGGGCGCGCCCGCC----GCCAGCACCGATCGGT
TCGAGCTCCTCCGCTGGATTTG-GTTTAAGATCTGTCTGTCTGCAGAGCTATCAGCTATGGTTGTGGGGTCTTGTAATCC
GATTTGGTGGTATGGTTTT--AAAC-TTGGTTTCGTTGTAACCGGTGTT-AAAGATCGATGCTGCATACGGCGTGTTGCG
GTAT---ACTCGTATATGTACGCTGGATTGAAAATTCGAGTACGGTTTGATTGGTCGTTTG--TTTTTGCCTTCGAGTCG
TTCAGGTGTTTGGTTGAGGATTCGATTACGCTTCAAAGAGGAGTTTGAGAATATATAAAACGTTGCCTCAACTTTAAGCA
CCTCGTCTGGGTGGTGTAGTTGGTTATCACGTTAGTCTCACACACTAAAGGTCCCCAGTTCGAACCTGGGCTCAGACAAC
TTTTTTTCCAATATCA-------GTTTTTGGAAACACATTTAG-------------------------------------
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>chr1D_1938
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----------------------------------------------------------------------CTCTAGCAGA
CCCCTTAAAACTGCGACCCGTATAAGTGTTTTACGGGCCAAGAAAAACACATTATAAGGGCCAATTTTAGTTGCGACCGA
ACAGAGCCCGTATAATTAACCCGTAAAAA-GAATATTCTCTAAATATACCCACAACTGGCTTTTTTTTGGTCGTCATCTT
CCTCAGGCCAACTTGAAATCGACCAGCGCGGCCACCGGCGGACAAGCGGACGAGGAAGACACGGGGCGGCCGCAGCGGCG
GGACTCCAGC-------------GACCGGCGGCTGGCGGGCGCGGCCGCCGTCGGGAGACACGCATCGAGCTAGCTAGCT
CCGTGCGAATCGATTGAGCTAGCAGCTAGCT-AGCTCCGTTCGAGAGACGGGCGAGCGCGGCAGCCGGGGCGAAGGGCCG
CGGGCGCGCGGCTGGCGTTGGAGACGAGTGGACGGGAGCGACCATGAAGATTCCGATGGCGGTTAAACTCCCGCCAACGG
TGGTTCGTGTATACAGGGCCCCTTCGGTTTGGCTCCGAAATCCTTATATTCACAGTTTCGGCGGGGATGTTTTCCGCGCC
CCTT-AAAAAAATTACGGGTCGAAGCCGTTTACGGTTTCTATTCGGGTCGCTTTTTTCGCCGAAAACTGTAAACCGGCGG
TTATTTTATAGTTTAGTGCGTTATACGGGGTCTGCTAGAGATGCT------------------------
>SNPs
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS----S-------S-S-------------S-------
----------------------------------------------------------------S-S-------------
------------------------------------------------------------------S-------------
-----------------------------------------------------------------------S--------
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--------------------------------------S-----------------------------------------
---------------------------------------------------------------------S----------
---SS--------------S---------S--------S-----------------------------------------
---------------------------------------------------------S----------------------
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---------------------S----------------------------------------------------------
S-------------S----SS-----------------S----------S------------------------------
-------S--------------------------------------------S--------SS-----------------
---S---------S--------S--------------S-------------------S---S---S---S-S--------
---S----------------------------------------------------------------------------
-S-----S-SSS-SSSSSSSSSS--------------------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS----S-----
------------S-------------------------SS--------SS---------S--S-------S---------
----------------S-S-S--------S---------------------------S----------------------
----SS-S--------------S-S--------S---------------------------------------S--SSSS
----SSSS--SSSSSSSSSSSSS----------------S-SS---S-------S----S-------S------------
-------------------------------S---------------S--------------S--S---S--SS-SSSS-
---SS---------------------------------S---------------------S------------S---S--
-S----S-----S-----------S--S---S------------------------------------------S---S-
----S-------------------S------------------S--------------------------S-S--SS---
--------S--S--S--S-----S-------S----------SSSSSSSSSSSSSSSSSSSSSSSSSSS
>forward_155
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-------------------------------------------------------CGTGTGCGTATCCCTAGGTC-----
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>reverse_1988
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-------------------------------------------------------------------TGACTCTCGCAGA
CCCCTTA-------------------------------------------------------------------------
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