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Online supplements for paper:

Polymorphism due to multiple amino acid substitutions at a codon
site within Ciona savignyi

Nilgun Donmez*, Georgii A. Bazykin†, Michael Brudno*‡, Alexey S. Kondrashov§

*Department of Computer Science, University of Toronto, Toronto ON M5S 3G4 Canada
†Institute for Information Transmission Problems of the Russian Academy of Sciences
(Kharkevich Institute), Moscow 127994, Russia
‡Banting and Best Department of Medical Research, University of Toronto, Toronto
ON M5S 3G4 Canada
§Life Sciences Institute and Department of Ecology and Evolutionary Biology,
University of Michigan, Ann Arbor, MI 48109-2216, USA

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This directory should contain two files:

Masked alignments
Codon list

Masked alignments -> C. intestinalis vs. C. savignyi alignments
    in FASTA format. Each triple of sequences correspond to a
    set of orthologous genes. The masked (lowercase) characters in
    alignments were not used in the analysis.

Codon list -> The list of all 2-substitution codons from the non-masked
    regions of alignments.

For more information or questions please send an e-mail to:

    brudno (at) cs . toronto . edu

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