Model of perfect tandem repeat with random pattern and empirical homogeneity testing poly-criteria for latent periodicity revelation in biological sequences.
A model of perfect tandem repeat with random pattern has been considered. It expands a notion of approximate tandem repeat and describes new kind of latent periodicity in biological sequences, which has been named profile periodicity. Based on this model, an original spectral-statistical approach has been proposed for the estimation of size of the periodicity pattern in sequences of approximate tandem repeats. In contrast to existing approaches, this is applicable in practical conditions of unrepresentative samples (for standard criteria). This approach is suitable and effective for preliminary automated revelation of latent periodicity. The advantages of the spectral-statistical approach to estimation of the periodicity pattern for approximate tandem repeats have been demonstrated in comparison with the other methods.
Chaley
Maria
M
Institute of Mathematical Problems of Biology of Russian Academy of Sciences, Institutskaya St, 4, 142290, Pushchino, Russia. maramaria@yandex.ru
Kutyrkin
Vladimir
V
D000465:Algorithms; D000818:Animals; D001483:Base Sequence; D017173:Caenorhabditis elegans / Q000235:genetics; D030541:Databases, Genetic; D008957:Models, Genetic; D008969:Molecular Sequence Data; D010363:Pattern Recognition, Automated / Q000379:methods; D017422:Sequence Analysis, DNA / Q000379:methods*; D012689:Sequence Homology, Nucleic Acid; D013269:Stochastic Processes; D020080:Tandem Repeat Sequences / Q000235:genetics*