Model for the distributions of k-mers in DNA sequences.
The evolutionary features based on the distributions of k-mers in the DNA sequences of various organisms are studied. The organisms are classified into three groups based on their evolutionary periods: (a) E. coli and T. pallidum (b) yeast, zebrafish, A. thaliana, and fruit fly, (c) mouse, chicken, and human. The distributions of 6-mers of these three groups are shown to be, respectively, (a) unimodal, (b) unimodal with peaks generally shifted to smaller frequencies of occurrence, (c) bimodal. To describe the bimodal feature of the k-mer distributions of group (c), a model based on the cytosine-guanine " CG" content of the DNA sequences is introduced and shown to provide reasonably good agreements.
Chen
Yaw-Hwang
YH
Department of Electronics Engineering, Kun Shan University of Technology, Yung-Kang, Tainan Hsien, Taiwan, Republic Of China.
Nyeo
Su-Long
SL
Yeh
Chiung-Yuh
CY
D000818:Animals; D017360:Arabidopsis / Q000235:genetics; D001483:Base Sequence; D002645:Chickens; D002891:Chromosomes, Human, Pair 21; D017124:Conserved Sequence; D003596:Cytosine / Q000737:chemistry; D004247:DNA / Q000737:chemistry*; D019281:Dimerization; D004330:Drosophila; D004926:Escherichia coli / Q000235:genetics; D019143:Evolution, Molecular; D005800:Genes, Fungal; D017343:Genes, Plant; D016678:Genome; D016680:Genome, Bacterial; D006147:Guanine / Q000737:chemistry; D006801:Humans; D051379:Mice; D015233:Models, Statistical; D009690:Nucleic Acid Conformation; D011336:Probability; D017422:Sequence Analysis, DNA; D014210:Treponema pallidum / Q000235:genetics; D015027:Zebrafish / Q000235:genetics
D006147:Guanine; D003596:Cytosine; D004247:DNA