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. 2008 Jan 30;36(5):1589–1598. doi: 10.1093/nar/gkm1040

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© 2008 The Author(s)

This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

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Figure 3. — Quantitative sequence logo of the p53 DNA-binding preferences. The height of the bars represents the number of times by which the amount of protein bound decreases, due to the base substitution. It shows the biggest possible effect caused by three alternative substitutions. The height of individual letters is proportional to the amount of transcription factor bound to individual sequence variants under identical conditions. The sequence of the second half-site is identical to the first one when read on the non-coding strand of DNA in the 5′–3′ direction. The sequence logo takes complementarity of DNA into account. The sequence with the highest affinity for p53 is GG(A/G)CATGCCCGGGCATG(T/C)CC.