Application of chaos game in tri-nucleotide representation for the comparison of coding sequences of β-Globin gene

Abstract

In this paper, we use 2D tri-nucleotide representation based on chaos game theory. We extend the representation from 2D to 3D by taking the third coordinate as the multiple of the first two ones. Complete coding sequences of β globin genes of 10 species are now compared using four types of descriptors—1. Mean of the components of the represented sequences, 2. Standard deviation of the components of the represented sequence, 3. Highest eigen value of M/M matrix and 4. Highest eigen value of J/J matrix. The results in the four cases are critically examined. It is found that the use of J/J matrix with highest eigen value as the descriptor is the best one among the others.