Figure 7

Histogram of PWM scores from half sites from the literature. {DR4, IR0, ER6} TREs gathered from the literature were split into the two hexamers and aligned to create a list of half sites. PWM construction and scoring was applied to the known half sites using a leave-one-out (LOO) test protocol. This resulted in a left skewed score distribution. The distribution can be broken into 2 sections, a right region (blue) with high scores and a small left region (red). The negative scores are driven by half sites containing two C’s in positions 2 & 3 instead of G‘s. The Y-axis of Figure 7 reflects the probability density of observing a particular log-odds value from the PWM model for half-sites.