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. 2015 Apr 30;12:39. doi: 10.1186/s12977-015-0167-3

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© Serrao et al.; licensee BioMed Central. 2015

This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly credited. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.

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Sequence logos and dinucleotide step analysis of integration sites with 4 bp TSDs. (A-D) The height of each individual base at a given position is proportional to the frequency of the corresponding nucleotide within the sequences represented by the logos, and the height of each stack of base logos reflects the level of conservation at that position. (E) Percent YR utilization across the integration sites from panels A-D is shown relative to the calculated random value of 22% (dotted gray horizontal line). (F) Same as in panel E, except that the graph depicts RY utilization across the integration sites. Statistical analysis of panel E and F results are shown in Additional file 2: Figure S2 panels A and B, respectively. (G and H) The percent of YR (panel G) and RY (panel H) enrichment for each virus compared to random.