¹Institute of Mathematical Problems of Biology RAS – the Branch of Keldysh Institute of Applied Mathematics of Russian Academy of Sciences, Pushchino, Moscow Region, Russia
²Omsk State Medical University of Ministry of Healthcare of the Russian Federation, Omsk, Russia
³Moscow State Technical University n.a. N.E. Bauman, Moscow, Russia

Abstract. Method recognizing the flavivirus species, including a subtype recognition, that based on the genome sequence analysis, is proposed. This method takes into consideration frequency characteristics of amino acid codons in the coding sequences of full-length polyprotein of flavivirus genomes. High reliability of the method is proved in recognizing flavivirus genomes from 15 groups of different species and sub-types, that are sufficiently represented in the GenBank database. Ten various species of the flaviviruses, four sub-types of Dengue virus and Kunjin virus, that is suggested to be a sub-type of West Nile virus, are considered in the work.

Key words: flavivirus genome, latent profile triplet periodicity, frequencies of amino acid codons, flavivirus species recognition.