>input_sequence_72070
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-ATGTTTCCTTCAACATCATCGGCTCGAGCGCTGGGGAAATCTCTGGTGGTGCCGGCGGCGGACATGTCGTCGGCCATGG
TGACCACCGCCGCGGCAGCGGGCAAGGCGAAGATGACGGCCCTGGCGATCACGGCGGGAGAGAGCATGGCGGAGATGAAG
AAGAATCTGGCAC---CGACCATCGCCGCCGCCGACGAGAAAAACAACACCGGCAAGGAGATCGTTGTCGCCGCAGCACC
AGCACTGCCACCGGCACCCACACGGCCCAACATCTTCGCCGTGATCACCAGGCTGGCCGACCGCCCCTTCCTCAGCGCTG
ACGCGTCGGCGAAGCTGACGACGCTCGGGAAGAAGCTGGCAAAGAAGCTGACGGCGGAGGCGGCCCGGACCCTCATCAAG
ATGGACGTGAAGCAGCTGGTGGACGACCTCGACGCGGCGCTCCAGGCGGCCGAGCTCGCGCTGGACGACATCGAGCACCA
GCACCTGTGCCTCCAGGCGCTCATCATGTCGCACCAGGACGACAAGAAGAACCTGGCGAGCAAGCTGCGGTTCGGCCTCA
GGCGCTCCAGCATGAAGCTCCGGATCGCCAAGCGCCAGGACGAGGTCGAGACCATCGTCAACAAGGCGTACCGCCGGGTC
GTCGGGTCCAAGAAGAAATCCAAGACGCCAAAATATTAA-----------------------------------------
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>chr2A_1_TraesCS2A01G047000
TTGAACCGCAATCAGGGCACACCACGGATAAGGAGAGTAGGAGCTGAGCATTCACCTTCTGGAGGCGCCCGGCGGCGAGG
TGCGGACGGGCGAGATCCGATCTGCAGTCTCAACCCCGTCGCGCGGAAGACGGACGGGGGCCGAAAGCTTGCGATGAAGA
AAAAATGAGTGGCGCTGGTG-----GAGGCACCACGGTTGAGGGCGTCCGGCGGATCGACGGCCGACAGTGGAGGTGGCC
--------------GGCGGCAGTGCCTCGGCGAGTCTGTGTAGAGAGAGATTCTTTTTTTTTCTAGGAGACTGTGTAGAG
AGAATTTGTTTTTTTGAGACACTGTGTATAGAGAGATTTTTTTTAGGGCTCTGTGTATAGAGAGATATGCGTGCGTGTGG
GGCTGTGGGAAACACGCAAACGCGAGCAAGCAGCTGGCCCAGCCCATCCCGACCGACCAATGGACCGATCGTTCCATTGG
GGAATTTGCAGCCCCTGCTGATAATGGGCTTTTGCATGTGTTTGGGCCCAGTACTGAGTAGTAATACGGGCCGGAGACAC
GAAAGAGGTGGTGTAATCCGATCGGATCGGACAAGAGACGACCCGTGTTTGTNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCGACCCGTGTTTGGTAACTTGTTA------TAGTCGGATCGGGAAT
CCTACCGATGGAGGCGCACACG---------------TACAGAGGTCCTTCGATGCTATATATATATACGCACACCCAGC
ACGTCGTGACTCGTGACTTTTTTGAGAAGATCGTTAGTTTGTACAGTACGTGCTACTACATCCGCACAC-AGAAGAAGAA
GATGTTTCCTTCAACATCATCGGCTCGAGCGCTGGGGAAATCTCTGGTGGTGCCGGCGGCGGACATGTCGTCGGCCATGG
TGACCACCGCCGCGGCAGCGGGCAAGGCGAAGATGACGGCCCTGGCGATCACGGCGGGAGAGAGCATGGCGGAGATGAAG
AAGAATCTGGCAC---CGACCATCGCCGCCGCCGACGAGAAAAACAACACCGGCAAGGAGATCGTTGTCGCCGCAGCACC
AGCACTGCCACCGGCACCCACACGGCCCAACATCTTCGCCGTGATCACCAGGCTGGCCGACCGCCCCTTCCTCAGCGCTG
ACGCGTCGGCGAAGCTGACGACGCTCGGGAAGAAGCTGGCAAAGAAGCTGACGGCGGAGGCGGCCCGGACCCTCATCAAG
ATGGACGTGAAGCAGCTGGTGGACGACCTCGACGCGGCGCTCCAGGCGGCCGAGCTCGCGCTGGACGACATCGAGCACCA
GCACCTGTGCCTCCAGGCGCTCATCATGTCGCACCAGGACGACAAGAAGAACCTGGCGAGCAAGCTGCGGTTCGGCCTCA
GGCGCTCCAGCATGAAGCTCCGGATCGCCAAGCGCCAGGACGAGGTCGAGACCATCGTCAACAAGGCGTACCGCCGGGTC
GTCGGGTCCAAGAAGAAATCCAAGACGCCAAAATATTAATTTTTTCCTCAGTTATTGAACCTGATGAACATACGTACTCT
TGTGTGGCGTGCTATATATTCTCGCGTG----GTACTATGTAGAAGTTTCTCACCATGATGAAAAATACC-----TTTTT
AAAAAGCTTTTAATCTATTCATCATCGATCATGACAAAAAAATATGTTATATGTACTA-GCTAGTGGTAATTTCCGAATT
AAGGCGTGTCCGACTGCGATCTGGACGCACCTGCACGTTACCTATGTATTGCGGTTGTGTTTGGTGTAGTATAAAT----
---------CTTGTTTTTGTCTATATTTGTGATTGTTTGACTTGTTTTT-TTACCGGTGTACTTATTGTGTGGGTAGAAA
CAGTTTCTTTAAAACACATCACATATGTAGACGCTTACAACAACATACATATACTCACCCCTAT-GGATACACGCACGTT
AACCTCGTCCTCGTAGGCGATGGACACGCCATACCACACCATTCCACGACAATAAACCTGAACATCCAAACGAGTCTTGG
TTGGCATAGAAGCAATCTTTTATGGGGAGACACTCTCTCACAATTGTACTGGATGATTGTAGGGAAGCGAA---------
--------------------GAGTAGAGGCCGAAGGACCTACAACTTTTTATGATGATGTCTTCGTACAACTCATCTTCG
TACAGACATTCGCCGAAGAGTAGAGGCCG---------------------------------------------------
------------AATGAAAATATCCTTTATTGAAAAAAA--CGTGCAACTCATCTTCGTACAGACATGCAATTTTGAACC
GAACCGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNCATGATATTCTTCTGATTGGCCATCTTTGGTCGAGTGCTTGATGGCAGACAGCTTCACAAAGC
AAGGATGGCCTCACAGGCCGTCATTCGCTCAACCATCA
>chr2D_32
-------------------------------GGAGAGTGGGAGCTGAGCATTCACCTTCTGGAGGCGCCCGGCGGCGAGG
TACGGACGGGCGAGATCCGATCTGGACTCTCAACCCCGTCGCGAGAGAGACGGAAGGGGGCCGAAAGCTCGCGAGGAAGC
AAAGCTGAGTGGCGCTGGTATAGTAGAGGCACCACGGTAAAAGGCGCCCGGCGGAGCGACGGCCGGCGGTGGAGGTGTCC
GGAGCGGCGGATTGGGCGGCAGTGCCTCCGCGAGTCTC-------------TCTGTTCTTTTTTAGAAGACCTCG-----
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---------------GCAAACGCGAGCAAGCAGCTCGCCCGGCCCATCCCGG----CCAATGGACCGGTCCA--CATTGG
GGAATTTGCAGCCCAT-CTGATCATGGGCTTTTATTTATGTTTGGGCACGCTACTGGGTAGTAATACGGGCCGGAGGCAC
GAAAGAGGTGGTGT--------CGAATCGGACAAGAGACGAC--------------------------------------
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-----------------------------------GACCTGCGTTTGGTAATTTGGTACTGCCGTAGTCGGATCGGGAAT
CCTAGCGATCGAGGCGCACACCAGGTCCAACTCAACATACACAGGTCCTTCGATGCTATATATA----CGCACACCCAGC
ACGTCGTGACTCGTTAGTTCTTTCAGAAAGACGTTTGCTCC---------TGCTACTACTTCCTCGGAGAAGAAGTAGAA
GATGTTTACTCCAACATCATCGGCTCGAGCGCTGGGGAAATCTCTGGTGGTGCCGGCA---GACATCTCGACGGCCATGG
TGACCACCGCCGCAGCAGCGGGCAAGGCGAAGATGACGGCCCTGGCGATCACGGCGGGAGAGAGCATGGCGGAGATGAAG
AAGAATCTGGCAGTGAACATCGCCGCCGCCGCCGACGACAAAAACACCC---GCAAGGAGATCGTTGTTGCCGCAGCACC
AGCACTGCCACCGGCACCCACACGGCCCAACATCTTCGCCGTGATCACCAGGCTCGCCGACCGTCCCTTCCTCAGCGCTG
ACGCGTCGGGGAAGCTGACCACACTCGGGAAGAAGCTGGCGAAGAAGCTGACGGCGGAAGCGGCCCGCACCATGATCAAG
ATGGACGTGAAGCAGCTGGTGGACGACCTCGACGCGGCGCTCCAGGCGGCCGAGCTCGCGCTGGACGACATCGAGCACCA
GCACCTGTGCCTCCAGGCGCTCATCATGTCGCACCAGGACGACAAGAAGAACCTGGCGAGCAAGCTGCGGTTCGGCCTCA
GGCGCTCCCGCATGATGCTCCGGATCGCGAAGCGCCAGGACGAGGTCGAGACCATCGTCAACAAAGCGTACCGCCGGGTC
GTCGGGTCCAGGAAGAAATCCAAGACGCCAAAATATTAATTTTTTCCTCAGTTATTGAACCTGATGAACATACGTACTCT
TGTGTGGCGTGCTACATATTCTCATGTGGTACGTACTATGTAGAAGTGTCTCGTCATGATGAAAAATATCTTCTTTTTTT
TCAAAGCTATTGATCTATTCATCATCGATCATGACC-AAAAATATGTTATATGTACTA-GCTAGTGGTAATTTCCGAATT
AAGGCGTGTCCGACTGCGATCTGGACGCACCTCCACGTTACCTACGTATTGCGGTTGTGTTTGGTGTAGTATAAATCTTG
TTTTCTCAACTTGTTTTTGTCAATATTTGTGATTGTTTGACTTGTTTTT-T-ACCAGTGTATTTATTATGTGGGTAGAAA
CAGTTTCTTTAAAACACATCACATATGTAGACGCTTACAACAACACACATATACTCATCCCTAT-GGATACACGCACG-T
AACCTCGTCCTCGTAGGCGATGGACATGCCATACCACACCATTCCACGACAATAAACCTGAACATCCAAACGAGTCTTGG
TTGGCATAGAAGCAATCTTTTATGGGGAGACACTCTCTCACAATTGTACTGGATG-------------------------
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>chr2B_971
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--------------------------------------------------TGCTACTACTCCTCGATCGGAGAAGAAGAA
GATGTTTACTTCAACATCATCGGCTCGAGCGCTGGGGAAATCTCTGGTGGTGCCGGCA---GACATGTCGTCGGCCATGG
TGACCACGGCCGCGGCAGCAGGCAAGGCCAAGATGACGGCCCTGGCGATCACGGCGGGAGAGAGCATGGCGGAGATGAAG
AAGAATCTGGCAGCAGCGAACATCGCCGCCGCCGACAACAACAACAACACCTGCAAGGACATCGTTGTTGCCGCAGCACC
AGCGCTGCCACCGGCACCCACACGGCCCAACATCTTCGCCGTGATCACCAGGCTGGCCGACCGCCCCTTCCTCAGCGCGG
GCGCGTCGGGGAAGCTGACGACGCTCGGGAAGAAGCTGGCAAAGAAGCTGACGATGGAGGCGGCCCGCACCATGATCAAG
ATGGACGTGAAGCAGCTGGTGGACGACCTCGACGCGGCGTTCCAGGCTGCCGAGCTCGCGCTGGACGACATCGAGCACCA
GCATCTCTGCCTGCAGGCGCTCATCATGTCGCACCAGGACGACAAGAAGAACCTGGCGAGCAAGCTGCGGTTCGGCCTCA
GGCGCTCCCGCATGAAGGCCCGCATCGAGAAGCGGCAGATCGAGGTCGAGGCCATCGTCAACAAAGCCTACCGCCGGGTC
GTCGGGTCCAAGAAGAAGTCGAAGTCGCCAAAATATTAATTTTTT-CTCAGTTATTGAACCTCATGAGCATACGTACGCT
TGTACAAGTCTCTCC-----------------------------------------------------------------
-------------------------CTATGACGAAA-AAATATATTTCATCTGTACTATGCTAGTGGTTATTTCCGAATT
AA------------------------------------------------------------------------ATCTTG
TTTTTTCGACTTGTTTTTGTCTATATTTGTGTTTGTTTGACTTGTTTTTCTTACTAGTGTACCTATTATGTGGGTAGTAA
CAGTTTATTTAAAACACATCACATACGTAGACGCTTACAACA-----CATATATTCACCCCTATGGGATACGCGCACG-T
AACCTCGTCCTCGTAGGCGATGGACACACCATTCCACACCATTCCACGACAATAAACCTGAACATCCAAACTAGTCTTAG
TTGGCATAGAAGCAATCTTTTATGGGGAGACACTCTCTCACAATTATACTGGATGATTGTAGGGGAGCGAACGGACCTCT
TAAAATAAACTACATGTGACGAGTAGAGGCCGAAGGATCTACACCTTTTTATCATGACGTCTATCGACTGGAGCATAAGA
TCAGAGAGGTTTCTCCCATCATGGATGGGTATTATGCAGAGGCCGGTCATTCGCTCAGTGCGGGTTTATCACCTCGATGG
CTCAATATATCAAATGAAAATATCCTTTATCGAAAAAAAACCGTGCAACTCATCTTCGTACAGACATGCAATTCTGAACC
GAACCCGAGCCCCTCCCCGGCACACCCCCCTCGAGTG-------------------------------------------
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-----------------CATGATATTCTTCTGATTGGCCAT-TTTGGTCGAGTGCTTCAACTTCACG---------AAGC
AAGGATGGCCTCACAGGCCGTCATTCGCTCAACCATCA
>SNPs
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS-------S-----------------------------------------
-S----------------------S-S----------------S-SS-------S--------------S----S----S
---SS--------------S------------------SS-S----S--------S---------S-S---------S--
----------------------------S--------SSSSSSSSSSSSSS---S--S----S---S----SSS-SSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSS--------------------S----S----------SSSSS-----------S--SSSS------
--------------S-S-----S----------SSS-S---------S-SS-----S-------------------S---
--------------SSSSSSSS--S-----------------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS----S-S---------S---S------------------------
----S----S-----------S-------------------S----------------------SSSS------------
--------------S-S--S---S----SSS----S-S-SSSSSSSSSSS---------S---S--S-S-----------
-------S-------------------------------------------------SSSS-------------------
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------------S------S------------------S------------S----------------S-----------
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---------S---------------------------------------------------------S---S-S------
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--------S-------------------S-----------------------------------S---------------
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--------------S--------SS----------------------S----SS--------------S-----------
SS------S--S------------------------S-------------------------------------------
--------------------------------S-----------S-----------------------------------
-------------------------------------------------------S-----------S------------
---------------------------------------------S--------------------------------S-
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----------------------------------------------------------------S---------------
-------------------------------------S-----S--------S----S----SSSS--SSSSSSSSSSSS
-SSSSSSSS-SS-SSSSSSSSS-SSSSS----------------------------------------------------
------------------------------S------------------------------------------S------
-----SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSS------------------------S---------------S-SSSSSSSSSSSSSSSSS----
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>forward_609
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-----------------------------GACAAGAGACGACCCGTGTT-------------------------------
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>reverse_2408
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-------ATTCGCCGAAGAGTAGAGGC-----------------------------------------------------
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