Scaling Behavior of Maximal Repeat Distributions in Genomic Sequences

J.D. Wang, Hsiang-Chuan Liu, Jeffrey J.P. Tsai and Ka-Lok Ng
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J.D. Wang: Asia University, Taiwan
Hsiang-Chuan Liu: University of Illinois, USA
Jeffrey J.P. Tsai: Asia University, Taiwan
Ka-Lok Ng: Asia University, Taiwan

International Journal of Cognitive Informatics and Natural Intelligence (IJCINI), 2008, vol. 2, issue 3, 31-42

Abstract: The genome sequences data from various organisms were analyzed, and it is found that the relative frequency distributions of maximal repeat sequences P(k) verses the frequency of appearance k exhibits scaling behavior (P(k) ~ k-?). Correlation analysis provides very good evidence (with a coefficient of determination r2 > 0.875 for every case studied case, and the scaling relation is valid over three orders of magnitude of k) supporting that the distributions are well described by the power-law. It is found that the scaling behavior holds at the chromosome level, for different organelles (nucleus, chloroplast and mitochondria) and for a very wide range of taxa, such as Fungi, Algea, Protozoa, Archaea, bacteria, Plants, Nematode. This result is quite surprise as it suggests that (1) the scaling behavior seems to be universal and probably independent of the organisms, and (2) genomic sequences have features resembles natural languages.

Date: 2008
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