Figure 5.

RP promoters with high promoter activities have distinct organizations of transcription-factor binding sites. (A) For each group of RP promoters with high (red), intermediate (green), and low (blue) promoter activities, defined as in Figure 4, the average number of Fhl1 binding sites per promoter as a function of the distance from the translation start site is shown. The plots show a moving average using a window of 50 bp. Fhl1 sites are shown in only one of the two possible orientations and using the binding strength threshold from Figure 4 (see Supplemental Fig. 12 for plots using many possible thresholds). (B) Same as in A, for Sfp1 binding sites, but where sites are counted in both orientations (see Supplemental Fig. 13 for many site thresholds). (C) Same as in A, for Rap1 sites (see Supplemental Fig. 14 for many thresholds). (D) Same as in A, for TATA boxes (see Supplemental Fig. 15 for many thresholds).