>input_sequence_75002
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--------------------------------------------------------------------------CTCGGC
CA-AAGACATCAGCCACACTTCGCAGGAGCTGCCGCCGCCATGGGCAACCTGGTGTCGGCGAGCGCGGGCGGCGGCAAGA
TCGTGCTGCCGGACGGGAGCGTCCGGGCTTTGGGCGAGG---CCGTGTCCGTGGCCGAGCTCATGGTGGAGCACCCGCGC
CACTTCGTCGTGGACGCGCGCCTCGCGGCGGCCGGCGCC---GCCAAGGTCGCCGCGCTGCCGGCCGACCACCTGCTGGA
CGGTGCCGGGGTGTACGTCGTGCTCCCGGCCACCCGGGGCAGGGTCTCCGCCGACGAGGCCCGGCGAGCGCTCACGGCGT
CGCGGCTGCTTGCGCGGTGCCGGTCGATGCCGGTCAGCGCACAGGAGCAGCGGGACGAGGCGGCGCCGTTGCTGGGCGGG
CCCGGTGGCCACCAGCCGGAGTTCCTGAGCCAGGAGCTGACGCGCAGCGGGCCTTGGAAGCCCAGCTTGAAGACGATCGA
AGAGCGCGTGCTGCCGAGGAAGGTGCCCCACTGGCTCTTCTGACGCCAATCGACTCGTGCAACTGCAAACGAATGTGATC
TTGTATAAAAATA-AAAAAATGGCATGTGA--------------------------------------------------
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>chr2B_1_TraesCS2B01G110600
ATATATGAAAATCAGATTCAGCTTGAACTTTGTTGGCAGAGCCACCACCCTGCACAGTCAGGTTAGCCTTGTCCAGCTCA
TCTATAGCATTATCCCCATTTTGGAGGTTTTCATCTTGGATGTCATCCATGTTATCATTAGGTAATTTGTCTGTATCATC
GTCAAAACTATCTCCATCATTGTCATCATCAAAAGGGTCAAAAGCTCCCACCTGTTCAAAACCCTCCACGGTGAAACCCA
GGAGGAAAAGCTTCTTTTTCATCTCTTTTTTTCTTCTTCTTAGTGGGTGTCTCTGCATGCAATTTCAATCCATCGCTTAA
AGATAATGTAGCGAACCATTGCTTAATGCACCAACA--------------------------------------------
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-------------------------------------------TCCATCGCCAGAAACCGCGGTGCTTGTTCCCGATAGT
CGGATGAGATCAAGAAGACGAAGAAGTGGCTGAAGTGCAGTGGGCTTGTCGATGGTGCGACGTCTTATGC--------TA
GATGATTTTGTATAGTGATTTTATCTTCTTCTTTTTTGCGGGAAATAGTGATTTTATCCAGAAACCAGTATTTTAGATAT
TTTAATATCTTCTGGATCTGTTC-----TGTGGCCGCAACTGCAAGCATGAACGAAACACGATCCGGAGAAAGTGAGTCG
TGTGGATCGTAAAGAACGCAAGTGACCGAAGATCTCTTTTCCTACTCCACGCGTTTTTTTTCTTTTCTA-----------
---AAGTAATATCGCGTCAGCACACTCGCCAGACCAAACGGCGAGTATAACGGAAGAACAGACGTAGGACTAGCATATAT
CGTGAGACGCACGGCGCATGGGTCGCCGCGCCGCCGGCGTTGTCCCGGCGCCGCGCCGTGACCGTCCAGCCATTGACGTT
GGAGGTAGCGGAGCAGGTGTGGCTCGCTCCCGTCGATAGATCAGGTTCACACCGAACCCTCGATGGTTTTAAAAATCTCT
CGCCGGATCCACGCCAACTGAACCTCGCAACCGCCAGCGTTTTTATACCCGCCGTCGCCTTCCACTCTTCCACCCTCGGC
CA-AAGACATCAGCCACACTTCGCAGGAGCTGCCGCCGCCATGGGCAACCTGGTGTCGGCGAGCGCGGGCGGCGGCAAGA
TCGTGCTGCCGGACGGGAGCGTCCGGGCTTTGGGCGAGG---CCGTGTCCGTGGCCGAGCTCATGGTGGAGCACCCGCGC
CACTTCGTCGTGGACGCGCGCCTCGCGGCGGCCGGCGCC---GCCAAGGTCGCCGCGCTGCCGGCCGACCACCTGCTGGA
CGGTGCCGGGGTGTACGTCGTGCTCCCGGCCACCCGGGGCAGGGTCTCCGCCGACGAGGCCCGGCGAGCGCTCACGGCGT
CGCGGCTGCTTGCGCGGTGCCGGTCGATGCCGGTCAGCGCACAGGAGCAGCGGGACGAGGCGGCGCCGTTGCTGGGCGGG
CCCGGTGGCCACCAGCCGGAGTTCCTGAGCCAGGAGCTGACGCGCAGCGGGCCTTGGAAGCCCAGCTTGAAGACGATCGA
AGAGCGCGTGCTGCCGAGGAAGGTGCCCCACTGGCTCTTCTGACGCCAATCGACTCGTGCAACTGCAAACGAATGTGATC
TTGTATAAAAATA-AAAAAATGGCATGTGATGAGAGACTTTCTGAACC-----ATTTGGTGCTGCATATATG--TATATA
TATACATGGCAAAAGAGCGGAGATCTTACATACATG-AACAACTCGGTACGCCGGCCCGTGATACTGTTCTAAGTTACAA
ATTCTCA--AAACAGAATGGATTGCAGAATTGTTCAGCAGAACTGAACGACTGCTACGTTACAGAATAGGACCCCCTCGC
GGTGCGCCTGCCAGGCGAAACTCGTCAAGCTTGGTTCGCTTTGCTAGCGATGGCGGAGGCGTACTCGGAGATCGTTTGGT
CAGGCGACTGCCTGAGGTGCACGATGATGGGGAGCAGCTCGGATGACCGCAGGAAGAGCCTGCAGACGGTGTGGTCGCAC
ATCTTGCGCAGCGCGAAGAGCACGATTCTTAGTGGGGATTCGGTCAGAGCATCCTTTCTGCTGGGGCTCAGAGCAACCGC
GGAGTAGCTGCTGACCATCTTCAGTAGGGCCTGCACATGAATAAGTCAAGGGATGAGAGTGTCTGATGAGTAGGGCCTGC
GCATGAATAAGTCAAGGGCTCAGAGCAACCGTTGAAGAAATTAAGAATCGGCAATTTACCACTGAATAGACGACCAAAGC
ATTAGGTTAGTTTTGTTGACACATGGTA----CGAATACATATATTTCAATTTTTAAATATGTATCTGATCCATTCAACT
TCTTAAAAATGATGTCAGAATACAGTAGAACTCGATGGAATGAAGCAATAGCAGACTTGATACTTTTGCTAACACTGAGA
TGACAATAATTGACT---GCGATTATAGCCCATTAGTAGCTGAGTGAAGCGTTTTGCTCAGCCTCCATGGAGCCCTT--C
TTTAAAACATTCAAAAATCACATTTCAAGTAAAATTTCATGAGAAAATACATTGACTCGCAAGCTACACAAAAAAGTGAA
AATCATCGGTTTTA-TGTAGTGCAGTGTG-TGTGCAGACACTGTTTGCTATTTTCAAAATCACCAATTTGTCTTTTTT-G
TGTAGCTCGCGT
>chr2D_1
ATATATGAAAATCAGATTCAGCTTGAACTTTCTTGGCAGAGCCACCACCCTGCACAATCAGGTAAGCCTTGTCCAGCTCA
TCTATAGCATTATCCCCATTTTGGAGGTTTTCATCTTGGATGTCATCCATGTTATCATTAGGTAATTTGTCTGTATCATC
ATCAAAACTATCTTCATCATTGTCATCATCAAAAGGGTCAAAAGCTCCCACCTGTTCAAAACCCTCCACAGTGAAACCCA
GGACGAAAATCTTCTTTTTCATCTCTTTTTT-----TTCTTAGTGGGTGTCTCTGCATGCAATTTTAATCCATCGCTTAA
AGATAATGTAGTGAACCATTGCTTAATGCACCAACATTAGGGATGTAAGTGGCAAATAAATGGCGTCCGCAATCCCGTTT
AGTTAGTTTTTGCTAGCTTGATAGTTCATTTTTCTCAAACAAACAAAAAACCTTTTTGAACTATCATATCATAAGTGGAC
TTTAAACGGGATTAAACGGGACCCGATTGACATCCCTCCAACATCTATCGCCAGCAACCGCGGTGCTTGTTTCCGATAGT
TGGATGAGATCAAGAAGACGAAGAAGTGGCTGAAGTGCAGTGGGCTTGTCGATGGTGCGACGTCTTATGCAGTTATGCTA
GATAATTTTGTATAGTGATTTTATCTTCTTATTTTTTGCGGCAAATAGTGATTTTATCTAGAAACCAGTATTTTAGATAT
TT---TATCTTCTGGATCTGTTCTGTCCTGTGGCCACAACTGCAAGCATGAACGAA-CACGATCCAGTGAAAGTGAGTCG
TGTGGATCGTAAAGAATGCGAGTGACCGAAGATCTCTGTTCCTACTCCACGCGATTTTTTTCTTTCTAC-----------
------TAATATCGCGTCAGCACACTCGCCTGACCAAACGGCGAGTATAACGGAAGAACAGACGTAGGACTAGCATATAT
CGTGAGACGCACGGTGTATGGGTCACCGTGCCGCCGGCGTTGTCCCGGCGCCGCGCCGTGACCGTCCAGCCATTGACGTT
GGAGGTAGCGGAGCAGCTGTGGCTCGCTCCCGTCGATAGATCAGGTTCACACCGAACCCTCGATGGTTTTAAAAACCTCT
CGCCGGATCCACGCCAACCGAACCTCGCAACCGCCAGCGTTTTTATACCCGCCGTCGCCTTCCACTCTTCCTCCCTCGGC
CAGACGACATCAGCCACAATTCGCAGGAGCCGCCGCCGCCATGGGCAACCTGGTGTCGGCGAGCGCGGGCGGCGGCAAGA
TCGTGCTGCCCGACGGGAGCGTCCGGGCTTTGGGCGGCGAGACCGTGTCCGTGGCCGAGCTCATGGTGGAGCACCCGCGC
CACTTCGTGGTGGACGCGCGCCTCGCGGCGTCCGGCGGAGGGGCCAAGGTCGCCGCGCTGCCGGCCGACCACCTGCTGGA
CGGTGCCGGGGTGTACGTCGTGCTCCCGGCCACCCGGGGCAGGGTCTCCGCCGACGAGGCCCGGCGAGCGCTCACGACGT
CGCGGCTGCTTGCGCGGTGCCGGTCGATGCCGGCCAGCGCACAGGAGCAGCGGGGCGAGGCGGCGCCGTTGCTGGGCGGG
CTCGGTGACCAGCAGCCGGAGTTCCTGAGCCAGGAGCTGACGCGCAGCGGGCCATGGAAGCCCAGCTTGAAGACGATCGA
AGAGCGCGTGCTGCCGAGGAAGGTGCCTCACTGGCTCTTCTGACGCCAATCGACTCGTGCAGCTGCAAACGAATGTGATC
TTGTTTATAAAAATAAAAAATGGCATGTGATTAGAGACTCTTTCTCTGAACCGATTTGGTGCTGCATATATGTAC----A
TATACATGGCAAAAGAGCGGAGATCTTACATACATGGAACAACTCGGTACGCCGGCCCGTGATACTGTTCTAATAAGTTA
CAATTCCAGAAACAGAATGGATTGCAGAATTGTTCAGCAAAACTGAACGACTGCTACGTTACAGAACAGGACCCCCTCGC
GGTGCGCCTGCCAGGCGAAACTCGTCAAGCTTGGTTCGCTTTACTAGCGATGGCGGAGGCGTACTCGGAGATCGTTTGGT
CAGGCGACTGCCTGAGGTGCACGATGATGGGGAGCAGCTCGGATGACCGCAGGAAGAGCCTGCACACGGTGTGATCGCAC
ATCTTGCGCAGCGCGAAGAGCACGATTCTTAGTGGGGATTCGGTCAGAGCATCCTTTCTGCTGGGGCTCAGAGCAACCGC
GGAGTAGCTGCTGACCATCTTCAGTAGGGCCTGCACATGAATAAGTCGAGGGATGAGAGTGTCTGATGAGTATCACA---
----------------------------------AAGAAATTAAGAATCGGCAATTTACCACTGAATAGACGACCAAAGC
ATTAGAAATGATGGTCAGAATATAGTAGAACTCGAATACATATATTCCAATTTTTAAATATGTATCTGATCCATCTAACT
TCTTAAAAATGATGTCAGAATATAGTAGAACTCGATGGAATGAAGCAATAGCAGACTTGATACTTTTGCTAACACTGAGA
TGACAATAATTGACTTATGCGGTTATAGCCCATTAGTAGCTGAGTGAAGCGTTTTGCTCAGCCTCCATGGAGCCCTTTGC
TTTGAAACATTCAAAAATCACATTTCAAGTAAAATTTCATGAGAAAATACATTGACTCGCAAGCTACACAAAAAAGTGAA
AATCGTCTG-TTTT-TATAGTGCAGAGTG-TGTGCAGACACTGTTCACTATTTTCAAAATCACCAATCTGTCTTTTTTTG
TGTAGCTTGCGT
>chr2A_565
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-------------------GTTT-----TGTGGCAGCAACTGCAAGCATGAACGAAACACAATCCAGATAAAGTGAGCCG
TGTGGATCGTAAAGAATGCAAGTGACCGAAGATCTGTGTTCCTACTCCACGCGTTTTTTTTCTTTCTACTATATTCTACT
AATAAATAATATAGCGCCACCACACTCGCCTGACCAAACGGCGAGTATAACGGAAGAAAC------------------AT
CGTGAGACGCACGGTGCATGGGTCGCCGCGCCGCCGGCGCTGTCCCGGCGCCGCGCCGTGACCGTCCAGCCATTGACGAT
GTTGGTAGCGGAGCAGCTG--GCTCGCTCCTGTCGATAGATCAGGTTCACACCGAACCCTCGATGGTTTTA-AAATCTCT
CGCCGGATCCACGCCAACTGAACCTCGCAACCGCCAGCGTTTTTATACCCGCCGTCGCCTTCCCTCCT-----CCTCGGC
CAAAAGACATCAGCCACACTTCGCAGGAGCCGCCGCCGCCATGGGCAACCTGGTGTCGGCGAGCGCGGGCGGCGGCAAGA
TCGTGCTGCCGGACGGGAGCGTCAGGGCGCTGT---GCGAGCCCGTGTCCGTGGCCGAGCTCATGGTGGAGCACCCGCGC
CACTTCGTCGTGGACGCGCGCCTCGCGGTGGCCAGCGTC---GACAAGGTCGCCGCGCTGCCGGCCGACCACCTGCTGGA
CGGTGCCGGGGTGTACGTCGTGCTCCCGGCCACCCAGGGCAGGGTCTCCGCCGACGAGGCCCGGCGAGCGCTCACGGCAT
CGCGGCTGCTTGCGCGGTGCCGGTCGATGCCGGTCAGCGCACAGGAGCAGCGGGACGAGGCTGCGCCGTTGCTTGGCGGG
CCCGGCGACCACCAGCCGGAGTTCCTGAGCCAGGAACTGACGCGCGGCGGGCCTTGGAAGCCCAGCTTGAGGACGATCGA
AGAGCGCGTGCTGCCGAGGAAGGTGCCTCACTGGCTCTTCTGACGCCGATCGACTCGTGCAACTGCAAACGGATGTGATC
TTGTTTA--AAAATAAAAATTGGCATGTGATTAGAGACTTTT--TCTGAACCGATTTGGTGCTGCATATATGTATATATA
TATACATGGCAAAAGAGCGGAGATCTTACATACATG-AACAACTCGGTACGCCGGCCCGTGATACTGTTCTAATAAGTTA
CAATTCCAGAAACAGAATGGATTGCAGAATTGTTCAGCAAAACTGAACGGCTACTACATTGCAGAATAGGA-CCCCTCGC
GGTGCGCCTGCCAGGCGAAACTCGTCAAGCTTGGTTCGCTTTACTAGCGATGGCGGAGGCGTACTCGGAGATCGTTTGGT
CAGGCGACTGCCTGAGATGCACGATGATGGGGAGCAGCTCGGATGACCGCAGGAAGAGCCTGCACACGGTGTAGTCGCAC
ATCTTGCGCAGCGCGAAGAGCACGATTCTTAGTGGGGATTCGGTTAGAGCATCCTTTCTGCTGGGGCTCAGAGCAACCGC
GGAGTAGCTGCTGACCATCTTCAGTAGGGCCTGCGCATGAATAAGTCGAGGGATGAGAGTGTCTGATGAGCATCACAAAG
--------------------------AACTGTTGAAGAAATTGAGAATCGACAATTTACCACTGAATAGACGACCAAAGC
ATTTGGTTAGTTTTGTTGACACATGGTA----CGAATACATATATTTCAATTTTTAAATGTATATCTGATCCATTCAACT
TCTTAAAAATGATGTCAGAATATGGTAGAACTCAATGGAACGAAGCAATAGCAGATTTGCCACTTTTGCTAACACTGAGA
TGACAATAATTGACTTATGCGGTTATAGCCCATTACTAGCTGAGTGAAGCGTTTTGCTCAGCCTCCATGGAGCCCTTTTC
TTTGAAACATTCAAAAATCACATTTCAAGTAAAATTTCATGAGAAAATACATTGACTCCCAAGCTACACAAAAAAGTGAA
AATCGTCGG-TTTTATATAAGGCAGAGTGTTGTGCAGACACTGTTCACTATTTTCAAAATCACCAATTTGTCTTTTTT-G
TGTAGCTCGC--
>SNPs
-------------------------------S------------------------S------S----------------
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S------------S-------------------------------------------------------S----------
---S-----S---------------------SSSSS-----------------------------S--------------
-----------S--------------------------------------------------------------------
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---------------------------------------------S--------S----------------S--------
S-------------------------------------------------------------------------------
---S--------------------------S----------S----------------S---------------------
--SSS------------------------------------------------------------S--------------
----------------S--------------------S---------------------------SSSS-----------
-----S------------------------S-------------------------------------------------
--------------S-----------------------------------------------------------------
----------------S---------------------------------------------------------------
-----------------------------------------------------------------------S--------
------------------------------S-------------------------------------------------
------------------------------------SS------------------------------------------
-------------------------------------S------------------------------------------
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-------S------------------------------------------------------------------------
---------------------------S----------------------------------------------------
----S--S---S-------------------S---------S-SSSSS--------------------------------
-------------------------------------------------------------------------SSSSSS-
SSSS--S--------------------------------S----------------------------------------
------------------------------------------S-------------------------------------
----------------------------------------------------------------S---------------
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-----------------------------------------------S------------------------SSS-SSSS
SSSSSSSSSSSSSSSSSSSSSSSSSS---S--------------------------------------------------
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----------------------S---------------------------------------------------------
---------------------S----------------------------------------------------------
---S----------------------------------------------------------------------------
----S----S---S--S--------S-------------------SS---------------------------------
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>forward_535
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-----------------------------------CACCAACATCCATCGCCAGA-------------------------
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>reverse_2330
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---------AGTCAAGGGCTCAGAGCAAC---------------------------------------------------
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