Box-plots of motif enrichment p-values. We grouped all the sequences of the regions called by BayesPeak (including the ones called by MACS) and the ones detected only by MACS. Here we compare boxplots for the groups of called peaks, which summarize the p-values corresponding to the significance of the motif enrichment in each of the respective sequences. We observe that the regions identified by BayesPeak give lower p-values, on average, compared to the ones called by MACS only, strengthening the indication that enrichment is less likely to have occurred by chance and that binding does take place at those sites. A separate analysis with CLOVER used on the same groups, yielded p-values of less than 10-6 for the regions called by BayesPeak and greater than 0.10 for those identified only by MACS.