Figure 4.

The magnitude and effect of sensu stricto core promoter variation. (A) For each RP gene, its sensu stricto conservation track (see Supplemental Note) along the 200 bps upstream of the translation start appears in the left heatmap. Correspondingly, its sensu stricto promoter activity variation (the coefficient of variation of the four orthologous promoter activities) appears in the right bar plot. Genes were sorted by promoter activity variation. (B) For different promoter windows, we computed the Pearson correlation between the mean window sequence variation (1-conservation) and the promoter activity variation. For each window, the resulting correlation value (y-axis) is plotted above the window center position (x-axis). Significant correlations (controlled for having a false discovery rate of 5%) are marked by red circles. On the left are correlations for 50-bp windows (with a 25-bp step) within the 400 bps upstream of the translation start site. On the right we zoom in on the last 50 bps upstream of the translation start site and show correlations for 10-bp windows (with a 5-bp step).