Pair change points of the triplet periodicity of genes

Abstract

The triplet periodicity (TP) is a distinguished property of protein coding sequences. There are complex genes with insertions of another TP type. We say that these genes contain a pair change points of the triplet periodicity (PCP). The aim of the work is to study such genes and try to understand the nature of the PCP phenomenon. We introduced a new mathematical measure of similarity between triplet matrixes and developed a mathematical method to identify PCP in a sequence. We identified 2700 genes with PCP among 66936 genes from 17 bacterial genomes. We developed a mathematical approach to visualize the presence of PCP in the genes and PCPs are easily distinguishable. At the same time, we found 6459 genes with a single change point, which is consistent with our previously obtained results.