Database of Periodic DNA Regions in Major Genomes.
Summary. We analyzed several prokaryotic and eukaryotic genomes looking for the periodicity sequences availability and employing a new mathematical method. The method envisaged using the random position weight matrices and dynamic programming. Insertions and deletions were allowed inside periodicities, thus adding a novelty to the results we obtained. A periodicity length, one of the key periodicity features, varied from 2 to 50 nt. Totally over 60,000 periodicity sequences were found in 15 genomes including some chromosomes of theH. sapiens(partial),C. elegans,D. melanogaster,andA. thalianagenomes.
Institute of Bioengineering, Research Center of Biotechnology of the Russian Academy of Sciences, Leninsky Ave. 33, bld. 2, 119071 Moscow, Russia.
Felix E
0000-0002-8958-7447
FE
Frenkel
National Research Nuclear University "MEPhI", Kashirskoe Shosse 31, Moscow 115409, Russia.
Maria A
0000-0002-5759-1898
MA
Korotkova
Institute of Bioengineering, Research Center of Biotechnology of the Russian Academy of Sciences, Leninsky Ave. 33, bld. 2, 119071 Moscow, Russia; National Research Nuclear University "MEPhI", Kashirskoe Shosse 31, Moscow 115409, Russia.
Eugene V
0000-0003-2960-8936
EV
Korotkov
D000818:Animals; D017360:Arabidopsis / Q000235:genetics; D017173:Caenorhabditis elegans / Q000235:genetics; D002875:Chromosomes / Q000235:genetics; D004331:Drosophila melanogaster / Q000235:genetics; D016678:Genome; D006801:Humans; D054643:INDEL Mutation / Q000235:genetics*; D008962:Models, Theoretical; D011387:Prokaryotic Cells; D017422:Sequence Analysis, DNA