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Until now this bias remained of unknown origin.<\/jats:p>\n              <\/jats:sec><jats:sec>\n                <jats:title>Results<\/jats:title>\n                <jats:p>Using a technique for analysis of auto-correlations based on linear projection, we identified the sequences responsible for the bias. Prokaryotic and lower eukaryotic genomes are covered with ubiquitous patterns that we termed \"class A flexible patterns\". Each pattern is composed of up to ten conserved nucleotides or dinucleotides distributed into a discontinuous motif. Each occurrence spans a region up to 50 bp in length. They belong to what we named the \"flexible pattern\" type, in that there is some limited fluctuation in the distances between the nucleotides composing each occurrence of a given pattern. When taken together, these patterns cover up to half of the genome in the majority of prokaryotes. They generate the previously recognized 11 bp periodic bias.<\/jats:p>\n              <\/jats:sec><jats:sec>\n                <jats:title>Conclusion<\/jats:title>\n                <jats:p>Judging from the structure of the patterns, we suggest that they may define a dense network of protein interaction sites in chromosomes.<\/jats:p>\n              <\/jats:sec>","DOI":"10.1186\/1471-2105-6-206","type":"journal-article","created":{"date-parts":[[2005,8,26]],"date-time":"2005-08-26T06:17:05Z","timestamp":1125037025000},"update-policy":"http:\/\/dx.doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":10,"title":["Genomes are covered with ubiquitous 11 bp periodic patterns, the \"class A flexible patterns\""],"prefix":"10.1186","volume":"6","author":[{"given":"Etienne","family":"Larsabal","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Antoine","family":"Danchin","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"297","published-online":{"date-parts":[[2005,8,24]]},"reference":[{"key":"531_CR1","doi-asserted-by":"publisher","first-page":"187","DOI":"10.1093\/bioinformatics\/15.3.187","volume":"15","author":"H Herzel","year":"1999","unstructured":"Herzel H, Weiss O, Trifonov EN: 10\u201311 bp periodicities in complete genomes reflect protein structure and DNA folding. 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