A new way to find similarity/dissimilarity of DNA sequences on the basis of dinucleotides representation

Abstract

In this paper, we have introduced a new way of representation of dinucleotides. They are directly represented by two-dimensional coordinates (x, y) in the Euclidean plane. By writing z = x × y, ultimately the representation is given by three-dimensional coordinates (xʹ, yʹ, zʹ). Based on the variances of cumulative values x0; y0; z0 of x, y, and z respectively, a measure is determined to compare coding sequences of β-globin genes of 11 species. We have also used another measure for similar comparison of sequences. This is based on the probability distribution of dinucleotides occurring in the sequence. Finally, we have compared the similarity/dissimilarity matrix obtained under above two measures by the method of correlation coefficient.