>input_sequence_86247
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-------------------ATGGAGGGCCTCATCCCGTTCATCTACAGGGCCGTGGCGCAGTACAGGAAGGAGGGGCAGG
TCTCCCTCGCCGACCTCCTCTTCGACGAGCAGCCGTCCTCGTCGCCCACGGCGGCCTCGGCCTACTTCCGCCTCCCCGGG
GACTCCGGCCGGCACCAGCGCGTCTCGGCCGACTCCGGTGCAGCA---------CGGCGGTCTCCGGCGCACCGTCGGCG
CACCATGGAGCACGGATCGTGGTGA-------------------------------------------------------
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>chr1A_1_TraesCS1A01G282800
ATCCGACCGCCGGCTCATAGCAGCAGATGATACAATCCGGTACGAACCTCCGCTCATTCTCTTCCTCTTCTT--------
--GAA-AAAAAACAACGATCTGGTATGAACTGTTGCCCGATCAGCATCTCCAGCGCCATAAACAAACCCCAGCACCGCAC
CAGTTTACGCCGGCGAGGTCAACCCTAGCAATCATGCCTCCACGTCAGCCGCACGGGCCGCCATCTACCCCATTGTTTAG
CCACGATCGCCACGCAACTGCTCGACTGGTGTATCGGGGAAGAAGTCAGCAGCCAGACGGATCGATCTTCTTGTCCGGTT
GTCCCGCCCTGGCA-GGCAGCATAGTCGGCCGGGGTGAGGCGAGGTCACGCTGAACT----TTCCCGCCATGGCAGCGG-
TTTCCGACGGATTACGCCACT------------GTCGGATAAAAAGAACCCGGCCAATCATGGTCC-GGCGGAGGTTTGT
GTTTGCTTATCTTTTGCGGCAGGTAAGCTGTAGGCTTCAATCAAAGGCTTTTGTTTTTCAGCCGAGAAATTACAGCGACT
GAG---AAACCACGTCGCTGTGCACTACGTACTCCACTTGGAAAACTCGCCTTGTAAGACTGACCATCCCTTGCGTTCAA
GCCTCCTCCCCTCGGCCCCTCCCCTGCTGGGATTCCATAGCCCCAATGATTAAT-AA----CCTGGAATTCTGCCCTAGC
TAGTTACCCTGGGAAATTCTCATGG------------------TGAGTGTCTGGCACGACACACTTTGATTGGTTGGTTT
CGGAGCTAAGGTGAAGCTGTCAGGGAACGAGCAATTATCCTTCCTTCCTAGGCGAGTAGCCCATTTGGTCTCTGATCTCT
ATCCGCTCAGAGGAATGGTCTATTTTGCCTCCCTTTTTAAGCCCATGTCCTCCTC---CCTCGCCATCATTCATCCCAAC
AAAGCGTGTCAAACCTCTCCCTCAAGTGTTGTCCCAATACCCACTACCTCTTCTCTCCACCGTCTTCTTCAGCTCTCTCG
AGCGGAAGGAAAAGGTCTCATGGAGGGCCTCATCCCGTTCATCTACAGGGCCGTGGCGCAGTACAGGAAGGAGGGGCAGG
TCTCCCTCGCCGACCTCCTCTTCGACGAGCAGCCGTCCTCGTCGCCCACGGCGGCCTCGGCCTACTTCCGCCTCCCCGGG
GACTCCGGCCGGCACCAGCGCGTCTCGGCCGACTCCGGTGCAGCA---------CGGCGGTCTCCGGCGCACCGTCGGCG
CACCATGGAGCACGGATCGTGGTGACCGATTGTGGTTGAAGCGCAGAAAGGCCAATAATA------AAGGAAACAGAGCG
AAGCAGGTGAAGACTTGCCTAGGTACGTCGTCGAGTACATGCAGATACGATGTCGATTGCTGA----------------G
CCTAGCTAAGCTAACACGAGCTTCAGACCTGCAGTTTATGTGTGCTATACATGCATATATTTG---TATTTCAGTTCAGC
CTGTAACGAGTC-------------GGTGAGTGTCAACTGTAAATATGGGATGCACAAGCGCAGGACCTCCGAAGGAGGA
CTGTGAAGAAGATGTATAGTGTCAGAGTCCATACAAATACATGGAGTGTAATATGGCAATAAAAGCTTCACCATGTACAA
AAAGGTTGTGTACACGCACACATGACTGCTTGCTGCAAGACTGCAAAAGAAGTGACTGTCAAGCATCAAGATTGCTAGTT
GCATCCGCGTTCTTCAGTTCAATCGTCCTTTTCAAGGAAGAAGAAGAA---------TTTTCAGTTCGAAATAAGGATAA
AAACAACCTTCTGGTTTCACACCCAGAGCAAGAACTACCATTGTTCTCT-------TGAAACTCACAAGAACAAGAATAA
CTTTGGTTGAAAAGATGTATGCG---------------------------------------------------------
----------------------------------------------------------GAATCACAAGAACACATGGAAG
GTTCTGTGCTACTCTGGTCTCCCATCAGGAAAGGAGTACGCACGAGAACCATAATTAAAGCGCACACGAATATTACAGCA
ACTAGGATTAGTTTGTTTTTCGTACGCACGGATCAATGCGGACTCGCGGACATCGTCCACATGGCCGAAGCCTTAACACT
TGGGCGCCGGGTGGACGCCGAAGGGAAAAACAGGGGTAGGAGCACGTAAATTGGAATTTAAGAAAATTCTAGGCACCTGT
GCCCGGACAGATCCATTTGAAATAAGCTTGGAGTACCAAACAAATTTCATCTTTGTTAAATTCAGTTCGATATCCCCGCA
AAACCGG---AAAAAAATTGGTTTGATATCGAGAGCCAAGCCCACACAAGAAAACCTCTCATCCATGACCTCTCTTT
>chr1B_17
ATAC----------------CAGCAGATGATACGATCTGGTACGAACCTCCGCTCATTCT---CTTCTTCTTGCAAAAAG
AAGAGGAAAAAACAACGATCTGGTATGAACTGTTGCCCGATCAGCATCTCCAGCGCCATAAACAAACCCCAACACCGCAC
TAGTTTAAGCCGGCGAGGTCAACCATGCCAATCATGCCTCCACGTCAGCCGCACGGGCCGCCATCTCCCCCATTGTTTAA
CCACGATCGCCACGCAACGGCTCGACAAGTGTATCGGGGAAGAAGTCAGCAGCCAGGTGGATCGATCTTC--------TT
GTCCCGCCCCGCCCTGGCAGCATAGTCGGCCGGGGTGAG-----ATCACGCTGAACT----TTCCTGCCATGGCAGCGAT
TTTCCGAAGGCTTACGGCACCGGCAGGCCTGGGGTTGGATAAAAAGAACTCGACCAATCATGGTCC-GGCGGAGGTTTGT
C-TTGCTTATCTTTTGCGGCAGGTAAGCTGTAGGCTTCAATCAAAG------GTTTTTCAACCGAGAAATTACTGCAACT
GAG---GAACTACGTCGTTGTCCACTACGTACTCCACTTGGAAAACTCGCCTTGTAAGACTGACCATCCCTTGCGTTCAA
GCCTCCTCCCCTA-------CCCCTGCTGGGGTTCCATAGCCCCAATGATTAATTAATTAACCGGGAATTCTGTTAGTTA
CCGG------GGGAAATTCTCATGG------------------TGAGTGTCTGGCACGACACATTTCGATTGATTGATTT
CAGAGCTAAGGTGAAGCTGTCAGGGAACAATTA--------TCCTTCCCGGGTTAGTGTCCCATTTGGTCTCTAATCTCT
ATCCACTCAGAGGAATGTTCTGTTTTGGCTCCCTTTTTAAGCCCATGTCCTCCTG---CCTCGCCATCAC----CCCAAC
AAAGCGTGTCAAACCTCTCCCTCAAGTGTTGTCCCAATAACCACTA---CTTCTCTCCACCATCTTCTTCGGCTCTCTCG
AGCGAAAGCAAAAGGTCTCATGGAGGGCCTCATCCCGTTCATCTACAGGGCCGTGGCGCAGTACAGGAAGGAGGGGCAGG
TCTCCCTCGCCGACCTCCTCTTCGACGAGCAGCCGTCCTCGTCGCCCACGGCGGCCTCGGCCTACTTCCGTCTCGCCGGG
GACTCCGGCCGCCACCAGCTCTTCTCGGCCGACTCCGGTGCGGCCGGAGCGGCGCGGCGGTCTCCGCCGCACCGTCGGCG
CACCATGGAGCATGGATCGTGGTGACTGACTGTGATTGAAGCGCAGAAAGTCATCCAAGGGATAATAAGAAAACAAAGCA
AAGCAGGTGAAGACTTGCCTAGGTACGTCGTCCAGTACATGCAGATACGATGTCGATTGCTGAGCAGCTGCACGTATTGG
CCTAGCTAAGCTAATACGAGCTGCAGACCTGCAGTTTATGTGTGCTATACATGCATATATTTGTACTATTTCAATTCAGC
TTGTAAAATGATCGGTCCGTGAGTTGGTGGGTGTCAAATGTAAATATGGGATGCACAAGCGCAGGACCTCCGAAGGAGGC
CTGTGAAGAAGATGTATAGTGTCAGGGTCCATT------CATGGAGTGTAATATGGCAATAAAAGCTTCACCATGTACAA
AAAGGTTATGTACACGCACACATGACTGCTTGCTGCAAGACTGCAAAAGAAGCGAGTGTCAAGTATCAAGATTGCTAATT
GCATCCGTGTTCTTCAGTTAAGTCTTCCTTTTCAAAGAAGAAGAAAAAGAAATCTCGTTTGCAGTTCGAAATCAGGATAA
AAACAACCTTCTGGTTTCATACCCAGAGCAAGAACAACCATTTTTTTTTCTCTTGATGAAACTCAGAAGAACAAGAATAA
CTTTGGTTGAAAAGATGTATTCCTCCGTTCCAAAATAGATGAACCAACTTTGTACTAACTCTAGTACAAAGTTGGTTCAT
CTATTTTGAGTACAAAGTTGGTTCATCTATTTTGGAACGGAGGGAGTAATATCGAATCGCATCGCAAGAAACATGGAC--
GTTATGTGCTACTCTTGTCTCTAATCAGGAAAGGAGTATGCGCGAGAAGCATAACTAAAGCATGCACGAATACTACATCA
ACTACGATCAGTTCATCTTCCGC----------CCACGCGGACTCACGGACACTGTCCGCCTG-----------------
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------------------------------------------AATG-CATCTTTGTTAAATTCAGTTCGATATCCCCGCA
AAAACAG-AAAAAAAAATTGGTTTCATATCGAGAGCCAAGCCCACACAAGAAACCCTCTCATCCTTGACCTCTCTTT
>chr1D_21
--------------------CAGCAGACGATACGATCCGGTACGAACCGCCGCTCATTCTCTTCTTCTTCTCGCAAAAAG
AAGAA-GAAAAACAACGATCTGGTATGAACTGTTGCCCGATCAGCATCTCCAGTGCCATAAACAAACCCCAGCACCGCAC
CAGTTTACGCCGGCGAGGTCAACCCTAGCAATCATGCCTCCACGTCAGCCGCACGGGCCGCCATCTTCCCCATTGTTTAC
TCACGCTCGCCACGCAACGGCTCGACAAGTGTATCGGGGAAGAAGTCAGCAGCCAGATGGATCGATCTTCTTGTCCGGTT
GTCCCGCCCCGCCCTGGCAGCATAGTCGGCCGGGGTGAGGTGAGATCACGCTGAACTTTCCTTCCCGCCATGGCAGCGAT
TTTCCGGAGGCTTACGCCACCGGCAGGCCTGGAGTTGGATAAAAAGAACTCGACCAATCATGGTCCGGGCGGAGGTTTGT
GTTTGCTTATCTTTTGTGGCAGGTAAGCTGTAGGCTTCAATCAAGG------GTTTTTCAGCCGAGAAATTACAGCAACT
GACTGAAAATAACGTCGCTG------------TCCACTTGGAAAACTCGCCTTGCAAGACTGACCATCCCTTGCGTTCAA
GCCTCCTTCCC-------CTCCCCTACTGGGATTCCATAGCCCCAATGATTAATTAA----CCCGGAATAATGTCCTAGC
TAGCTAGCAGTTACCCTGATGAATTCCCTTGTAATAGTACCCCTGAGTCCCTGACACGACACATTTTGGTTGATTGATTT
CGGAGCTAAGGTGAAGCTGTCAGGGAACAATTA--------TCCTTCCTAGGCGAGCGTCCCATTTGGTCTCTGATCTCT
ATCCACCCGGAGGCCTCTTCTGTTTTGGCTCCCTTTTTAAGCCCATGTCCTCCTCCTGCCTCGCCATCATTCATCCCAAC
AAAGCGTGTCAAACCTCTCCCTCAAGTGTTGTCCCAATAACCACTACTACCTCTCTCCACCGTCTTCTTCAGCTCTCTCG
AGCGAAAGCAAAGGGTGTCATGGAGGGCCTCATCCCGTTCATCTACAGGGCCGTGGCGCAGTACAGGAAGGAGGGGCAGG
TCTCCCTCGCCGACCTGCTCTTCGACGAGCAGCCGTCCTCGTCGCCCACGGCGGCCTCGGCCTACTTCCGTCTCCCCGGG
GACTCCGGCCGGCACCAGCGCTTCTCGGGCGACTCCGGTGCGGCCGGAGCCGCGCGGCGGTCTCCGGCGCACCGTCGGCG
CAGCATGGAGCATGGATCGTGGTGATTGATTGTGATTGAAGCGCAGAAAGGCCAAGAATA------AAGGAAACAGAGCG
AAGCAGGTGAAGACTTGCCTAGGTACGTCGTCGAGTACATGCAGATACGATGTGGATTGGTGGAAACCTCAA-GTATTGG
CCTAGCTAAGCTAATACGAGCTGCAGACCTGCAGTTTGTGTGTGCTATACATGCATGTATTGG---TATTTCAATTCAGC
TTGTAA---------------------TGATTGTCAACTGTAAATATGGGATGCGTAAGCGCAGGACCTCCGAAGGAGTC
CTGTGAAGAA-ATGTATAGTGTCAGAGTCCATT------CATGGAGTGTAATATGGCAATAAAAGCTTCACCATGTACAA
AAAGGTTGTGTACACGCACACATGA---CTTGCTGCAAGACTGCAAAAGAAGCGAGTGTCAAGCATCAAGGTTGCTAATT
GCATCCGCGTTCTTCAGTTCAGTCTTCCTTTTCAAAGAAGAAGAAGAA-AAATCTCGTTTTCAGTTCGAAATCACGATAA
AAACAACCTTCTGGTTTCACACCCAGAGCAAGAACAACCATTTTTCTCT-------TGAAACTCAGAAGAACAAGAATAA
CTTTGGTTGAAAAGATGTACAGTAT-------------------------------------------------------
-------------------------------------------------------ATCGAATCGCAAGAAACATGGAC--
ACTCTGTGCTACTCTAGTCTCCAATCAGGAAAGGAGTATGCGCGAGAAGCATAACTAAAGCATGCACGAATACTACATCA
ACTACGATCAGTTCATCTTCCGC----------CCACACGGACTCACGGACATTGTCCGCCTG-----------------
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------------------------------------------AATTTCATCTTTGTTAAATTAAGTTCGATATCCCCGCA
AAAACAGAAAAAAAAAATTGGTTTGATATCGAGAGCCAAGCCCACACAAGAAACCCTCTCATCCTTGACTTCTC---
>SNPs
--S-SSSSSSSSSSSSSSSS-------------S------------------------------S---------------
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------------------------------------------------------------------S------------S
------------------S-------SS-----------------------------S----------------------
---------S-S-S--------------------------S---S---------------------------------S-
-------S--S---------S--------------S-------------S--S---------------------------
----------------------------------------------SSSSSS------------------------S---
----------S----------S----------------------------------------------------------
------------SSSSSS---------------------------------------------S---------S------
---S--S-SS-----------------------------------------------------S--------S---S---
----------------------------S-SS-SSSSSSSS----------------SS---------------------
----S------------S---S-----S----------------------------------------------------
---------------------------------------S-------SS-------------------------------
----S---S-----------------------------------------------------------------------
----------------------------------------------------------------------S---------
---------------------S-------------------S--S-----------------------------------
------------S-------------S-------S--------------------S------------------------
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--------------S-------S--------------------------------------------------S------
S-----SSS-SS-------------------------------------------------------------------S
--------------------------------SSSSSSS-----------------------------------------
----------------------------------------------------S--S---------------------S--
---------------------S--S----------S------------------------------------S-------
-----------------------------------S------S----------------------S--------------
--------------------S-S---------------------------------------------------------
---------------------------------------------------------------S------SSSSS-SSSS
---------------S------S---------------S--S------S-----S------SSS--------S----S--
----S---S----SS-S--S--SSSSSSSSSSS-S-S--------S-------S----S-S--SSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS--------------------------------------
---S-S-----------------------------------------------S----------S------------
>forward_831
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-----------TGAAGCTGTCAGGGAACGAG-------------------------------------------------
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>reverse_2267
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--------------------------AAAACAGGGGTAGGAGCACG----------------------------------
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