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A trim distance as a phylogeny-based distance between two positions in nucleotide sequences is formulated as an LCA-preserving distance between the trimmed phylogenetic trees by the positions. In this paper, in order to investigate the positions as packaging signals of nucleotide sequences in influenza A (H3N2) viruses, we compute and compare the trim distances between positions in the nucleotide sequences of influenza A (H3N2) viruses provided from NCBI. [ABSTRACT FROM PUBLISHER]

In order to capture a selective packaging mechanism among eight RNA segments in influenza A viruses, we assume that almost nucleotides in the positions of packaging signals must be simultaneously changed. In this paper, we formulate such positions as correlated mutations based on a joint entropy ratio, develop a method of finding all of them by using set enumeration with pruning and apply to nucleotide sequences among RNA segments in H3N2 influenza viruses. [ABSTRACT FROM PUBLISHER]