>input_sequence_83854
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---ATGGCCGCCTGCGCCTTCTTCTTCGACGCGGAGCCGCTGGGCGAGCCCGGGCTGCAGCTGCACGGGCCGGAGCTGGA
GCTGGACGCCTGCGCGCTCTGCACCAAGCCGCTGCAGGGCAACAGCGACATCTTCATGTATAAGGGGGACACCCCCTTCT
GCAGCGAGGACTGCCGCTACGAGCAGATGCACTTCGACGCCGCCATGGCCAGGCAGCAGGCCAGCGCCAGGCGGAAGCAG
CAGCAGCAGCAGGCCCAGGCGCAGCCCAGCGTGCCGGCG---------------CCGGCGCCCGTGTCCGCCAAGGCCGA
CGTCTCCGTGGCGAGCTAG-------------------------------------------------------------
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>chr2A_1_TraesCS2A01G453400
GCCCGTTTTCTTTAGCGAAAGGGCTTGGCGCCTG-GGCCAAGGCGTAAGGGTTCTGAGCATGACAGCTCCGTCTGGGGTG
TCATACTCCATCAGCCTAGGTCCGTCCGGGCCGACGTGGCAAGTCAGTTCTGCCCTAATGGCCCCTTGATCAGGGTGTCA
TGATGCCTAGCATGACGTCCTGGGGCCGGCCGTCATAAAAATGAGCCATTTTTTGATATCTATTACTAGTTTAAATGGGG
TCCATTTTGTGTTTAATTTTGAAGATGGGCCAAATTTGCTGTTTTTCACTAGGAGACATGCCTCGTCTTCGTCTTCAAAA
GCAATAAAAACCACCGTGCTTCTCCAAAAAAGAAAAAGAAAAACACCGTGCAAGATTCTCGCGGAGAGCCCCCAGTCCCC
TACCAGCCGCGCGTGTCACGATGCAGTTAGCCTGGAGTCAAGCCCACTGCACCCCTCATCTGATCCACTGGGAGCTTCCC
CCGCACACTTTCCGCGTGAAAGACTCCAAACCTTGGAGTCCCTACCGTGAAAGCAAACGCCACGACCAGCTGTTGGCCAC
GTCAAGCTGAGTCGCCGGTATTACCATCGACGCGACCCCCGCCCGGATCTCGTCGTTTTCGCCCGCGTCCCACCGCCACC
AGCTGCGCCATGGGCCATGGCCGCAGAACAAAACATAAAGTAATGATTAAACCGCTCCGACACTCACTTACCGGTGGGCC
GGCCGGCATGTGGGTTCCAGAACCGCCCACAGCTTTCTTTCCCCCTCAGCTTTTCGCCCAAGCATCTCACATAAAAAAAT
GAAAATAAAACTTTCCGCCC------------------------------------------------------------
-------------------------------------------------AAGCAC--CACGTCACGGCCTCGAACCCTCT
TGCCCTCCACCCTCCCCGCGGGTTTATATGCCCGCCCCGTCCGCCTCCTCCGAACCTCAGCTCAAGCGGAACCCGCACAC
CCTCGCTCTCTCGAG-TTCCTCTTCTTCTTCCCCCCGAGCAAGGAGGAGGCTGCATCCGCAC------AG----CCCTGC
GTCATGGCCGCCTGCGCCTTCTTCTTCGACGCGGAGCCGCTGGGCGAGCCCGGGCTGCAGCTGCACGGGCCGGAGCTGGA
GCTGGACGCCTGCGCGCTCTGCACCAAGCCGCTGCAGGGCAACAGCGACATCTTCATGTATAAGGGGGACACCCCCTTCT
GCAGCGAGGACTGCCGCTACGAGCAGATGCACTTCGACGCCGCCATGGCCAGGCAGCAGGCCAGCGCCAGGCGGAAGCAG
CAGCAGCAGCAGGCCCAGGCGCAGCCCAGCGTGCCGGCG---------------CCGGCGCCCGTGTCCGCCAAGGCCGA
CGTCTCCGTGGCGAGCTAGTCGAGCCGCGCCGCATCGGGCTGGCTAGCTAGTAGGAACTATGTACCCTTTTTGCCTTGGG
TTGAAGGAGG---AGGACGCGGGGTTCTTTGGACGGCCAGTGTTCTTG-CCTGGCATCCGGTGCCGATCGATCAATCTAT
TGATCTGCACA----GGACTATCAGTCCAGGATCACCGCGGGCTTTTGATTGGCCCCCTTTTG------GGGTTTGGGTT
TGGCTATGAGAGGAGAGAGCGGGTGTGCAAGAGCACCGTCGCTGTGTAATTATTCAAGGCAAGCGATGTAAAGTATTTCT
CCAAATTTCGAAGGAAATATGATCATGTTTATTATTCATTTGAATGAGCATATTG-TTTCGAACCAACAGATGTTGATG-
---GTATGGTACATGGTACAACTGA---------AAATTTTATCA-AATGATGAACG----ATTTGCCGTCCA---AGAA
TCAGAGACACAATTG-TTTTCACTTGCCAGGATTGCAGCTCG-----------------------------TGCCACAAA
ACAGCTAATGTATCTATTCATTGCTCTATTTTTTTTTTTGCGGGGAGCTAGCGCATCCAATATGATGCATTTCCCTGTAA
CCGAAAGCAGTTCGCCATGATTATGTTCTG-TTAAGCGAAATGCTATTTGCTATCTAAATCTC--TGAAAAATACTAAAC
TTGGCCGG----CCCAGCAAATCATGTACTGAACCAGGTCCGCATATCAATTTAAATACGAATACGAGGAAAACGAATCT
TCAACGAACAAGCGAAACCCAATTTTCATTTGGCGAATCGAGTAAACAAAAGGCC-ATGCAGAGAAAATCAATTCGAGCA
AGTGTGAGTAAACAAAATCCCCTAAAAAAAGAAGAATTAAGTAAACAAAGAGCCAAGGCAAGAGGAAATCAAATCAAACA
TGATACACACTCCAGCGCCGAAGGTGGAGGAAATCAAATCAACCATGATGCCCCAACGGGCCAATCCTCCGGCGTCACAC
TCGTGGAACGCCTCAATTATTTTACTGTTTTCCGTGCGCCTCGCGACTCAGCG
>chr2B_2
-CCCGTTTTCTTTAGCGAAAGGGCTTGGCGCCCTAGGCCAAGGCGTAATGGTTCTAAGCATGACACCTCCCTCAGAGGTG
TCATACTCCATCAGCTGGGCAT-GTCCGAGCCAACGTGGCAAGTCAGCTCTAACCTCATGGCCCCTTGATCAGGGCGTCA
TGATGCCTACCATGACGCCTTGGGGCCGGCCGTCATGAAAATGGGTCATTTTTGAAATTTAGTAATAA-TTTAAATAGGG
TTCATTTTGTGCTTAATTTTGAAAATGGGCG-AATTTGTTGTTTTTCACTAGGAGACATGCCTCGTCGG------CAAAA
GCAATAAAAAACACCGTGCTTCTCAGGA----AAAAAAAAAACTACCGTGCAAGATCCTAGCAGAAAGCCCCTAGTCCCC
TACCAGCCGCGCGTGTCACGATGCAGTTAGCCTCGAGTCAAGTCCACTGCATCACTCATCTCATCCACTGGGAACTTCCC
CAGCACACTTTCCGCGTGAAAGACTCCAAACCTTGGAGTCCCTACCGTGAANNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAAGCAC--CACGTCACGGCCTCGAACCCTCT
TGTCCTCCACCCTCCCCGCGGGTTTATATGCCCGCCCCGTCCACCTCCTCTGAACCTCAGCTCAAGCGGAACCCGCACAC
CCTCGCTCTCTCCTTCTTCTTCTTCTTCTTCT-CCCGAGCAAGAAGGAGGCTCTGCTCCGCGCAAGCAAG----CTCTGC
CTCATG---GCCTGCGCCTTCTTCTTCGACGCGGAGCCGCTGGGCGAGCCCGGGCTGCGCCTGCACGGGCCGGAGCTGGA
GCTGGACGCCTGCGCGCTCTGCACCAAGCCGCTGCAGAGCAACAGCGACATCTTCATGTACAAGGGGGACACCCCCTTCT
GCAGCGAGGACTGCCGCTACGAGCAGATGCACTTTGACGCCGCCATGGCCAGGCAGCAGGCCAGCGCCAGGCGGAAGCAG
CAGCAGCAGCAGGCCCAGGCGCAGCCCAGCGTGCCGGCG---------------CCGGCGCCCGTGTCCGCCAAGGCCGA
CGTGTCCGTGGCGAGCTAGTTGCGCCGCGCCGCATCGGGT----TAGCTGGTAGGAACTATGTACCCTTTTTGCCTTGGG
TTGAAGGAGGAGGAGGATGCGGGATTC-TTGGACGGCCAGTGTTTTTGCCCTGGCATCCGATGCCGATCGGTCCATCTTT
TGATCTGCACAGGGCGGGCAATCTGAGCAGGATCACCGCGGTCTTCTGATTGGCCTCATTTTG------GGGTTTGGGTT
TGGGTATGAGAGGAGAGAGCAGGTGTGCAAGAGCACCGTCGCTGTGTAATTATGCAAGGCAATCGATGTAAAGTATTTCT
CCAAATTTTGAAGGAAATCCGATCATGTTTATTATTCATTTGAGCGAGTATTTTG-TTTTGAACCAGCAGATGTTTATT-
---GGATGGTACAATTGATAATTCCTAGCCAGCAAAAATTTCTCATAACGACGAAAG----ATTGGCCGTCCGATTAGAT
TCAGAGGCACAATTG-TTTTCACTTGCCAGTATTACAGCTCGTGCACGTAAGAACATCTAACGTCATAATCTGCCACAAA
ACAGCTAATGTATCTATTCTTCTCTTCATTA-TTTTTTTGCCGGGAGCTAGCGCATCCAATTTGATGCATTTTCCGGTAA
CCGAAAGCAGTTCGCCATGATTATGTTCTG-TTAAGCAAAATGCTATTTGCTGTCTAATCTCTGATGAAGAATACTGAAC
CAGCTGGTCGGCCCCAGCAAATCATGTACTGAACCAGGTCTGTTAATCAG-TTAAATACGAATACGAGGAAAACGAATCT
CCAACGAACAAGCAAAACCCGATTTTCATTCAGCGAATCGAGTAAACAAAAGGCCAAGGTAGAGGAAATCAAATCAATCA
TGTACCATA-------------------------AATTAAGTAAACAAAGGGCCAAGGTAACAGGAAATCAAATCAAACA
TGATACACACTTCAG-GCCGAAGGTGGAGGAAATCAAATCAACCATGATACCCCAACCGGCCAATCCTCCGGCGTCACAT
TCGTCGAACGCCTCAATTATTTTACTGTTTTCTGTGCGCCTCGCGACTCAGCG
>chr2D_398
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------------------------------------------------------------------------------CC
TACCAGCCGCGCGTGTCACGATGCAGTTAGCCTCGAGTCAAGTCCACTGCATCACTCATCTCATCCACTGGGAGCTTCCC
CCGCACACTTTCCCCGTGAAAGACTCCAAACCTTGGAGTCCCTACCGTGAAAGCAAACGCCACGACCAGCTGTTGGCCAC
GTCAAGCTGAGTCGCCGG---TACCATCGACGCGACCCCCGCCCGGATCTCGTCGCTTCCCCCCGTGCCCCACCGCCACC
AGCTGCACCATGGGCCATACCGGCAGAAC-AAACATAAAGTAATGATTAAACCGCTCCGACACTCACTTACCGGTGGGCC
GGCCGGCGTGTGGGTTCCAGAACCGCCCACAGCCTTCTTCCCCCCTCAGCTTTTCGCCCAAGCATCTCTCACAAAAAAAT
GAATAAAAAACTTTCCGCCC------------------------------------------------------------
-------------------------------------------------AGGCACCACACGTCACGGCCTCGAACCCTCT
TGTCCTCCACCCTCCCCGCGGGTTTATATGCCCGCCCCGTCCACCTCCTCTCAACCTCAGCTCAAGCGGAACCCGCACAC
CCTCGCTCTCTCGTTCT--CTCTTCTTCTTCT-CCCGAGCAAGAAGGAGGCTCTGCTCCGCGCAAGCAAGCGAGCTCTGC
CTCATG---GCCTGCGCCTTCTTCTTCGACGCGGAGCCGCTGGGCGAGCCGGGGCTGCGCCTGCACGGGCCGGAGCTGGA
GCTGGACGCCTGCGCGCTCTGCACCAAGCCGCTGCAGGGCAACAGCGACATCTTCATGTACAAGGGGGACACCCCCTTCT
GCAGCGAGGACTGCCGCTACGAGCAGATGCACTTCGACGCCGCCATGGCCAGGCAGCAGGCCAGCGCCCGGCGGAAGCAG
CAGCAGCAGCAGGCCCAGGCGCAGCTCAGCGTGCCGGGAGCACCGGCGCCGGCACCGGCACCGGTGTCCAACAAGGCCGA
TGTGTCCGTGGCGAGTTAGTTGCGCCGCACCACACCGGGT----TAGCTAGTAGGAACTATGTACCCTTTTTGCCTTGGG
TTGAAGA---AGGAGGATGCGGGGTTC-TTGGACGGCCAGTGTTCTTGCCCTGGCATCCGGTGCCGATCGATCAATCTAT
TGATCTGCAAACACTGGGCAATCGGAGCAGGATCACCGCGGGCTTTTGATTGGCCCCCTTTTGGGGTTTGGGTTTGGGTT
TGGGTATGAGAGGAGAGAGCGGGTGTGCAAGAACACCGTCGCTGTGTAATTACGCAAGGCAATCGATGTAAAGTATTTCT
CCAAATTTTGAAGGAAATATGATCATGTTTATTATTCATTTTGAACAGAGTATATTTTTTGAACCGGCAGATGTTGATCG
CTCGGATGGTACAATTGACAATTCTTAGCCAGCTAAATTTTCTGA-AATGATGAAACAAATATTTGACGCCTA---AGAA
TCAGAGGCACAATTGTTTTTCACTTGCTAGTATTACAGCTCGTGCG-----------------------------ACAAA
ACGGCTAATGTATCTATTCATTTCTCTATTTA--TTTTTGCCGGGAGCTAGCGCATCCAATATGATGCATTTTCCTGTAA
CCGAAAGCAGTTCGCCATGATTATGTTCTCTTTAAGCGAAATGCTATTTGCTATCAAAATCTC--TGAAAATTACTAAAC
CTGGTCGG----TCCAGCAAATCATGTACTGAACCAGGTCTGTTAATCAG-TTAAATACGAATACGAGGAAAACGAATCT
CCAACGAACAAGCAAAACCCGATTTTCATTTGGCGAATCGACTAAACAAAGGGCCA------------------------
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>SNPs
S-------------------------------SS--------------S------S---------S----S--S-S----
---------------SSS-SSSS-----S---S--------------S---SS---S------------------S----
---------S-------S-S----------------S------S-S-------SS-SS-SSS-S-SS-S-------S---
-S---------S-----------S------SS------S----------------------------SSSSSSSS-----
----------S-------------SSS-SSSS-----S----SS------------S--S--S--S------S-------
---------------------------------S--------S--------S-S-------S------------------
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------------------SSS----------------------------------S--S-S----S-S------------
------S-----------SS-S-------S--------------------------------------------------
-------S-------------------------S-----S----------------------------S--S--------
---S-S--------------------------------------------------------------------------
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--S---------------------------------------S-------S-----------------------------
-------------SS----------------SS----------S--------SSSSS-SSSS-------------S----
S-----SSS-------------------------------------------------SS--------------------
------------------------------------------------------------S-------------------
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---S----------------S-S----------------SSSSS------------------------------------
-----------------S---------S----------------------------------------------------
-----------------S-S---S-SS-----------------------------------------------------
---S-------------------------------------------------S--------S-----------------
--------S-----------------------------------S---S----------S------S-----------S-
----S--------SSSS----S-SS----------------S-------------S------------------------
------S-----------------------S---S---------------------------------------------
----------------------S--------S---------S------------------------------S-------
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S---S-----------------------------------S-SSS----SS-----------------------------
S------------S------S------------------------------------S-S----S-------S--S-S--
S--SSS-SSSSSSSSSSSSSSSSSSSSSSSSSSS----------------S-------S--S------------------
-----------S---S---------------------------------S-------S---------------------S
----S---------------------------S--------------------
>forward_792
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----------------------------------------------------TTCGCCCAAGCATCTCACAT--------
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>reverse_2241
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TCAACGAACAAGCGAAACCC------------------------------------------------------------
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