Sepsid even-skipped Enhancers Are Functionally Conserved in Drosophila Despite Lack of Sequence Conservation
Predicted binding sites for the five factors known to regulate expression from the eve stripe 2 enhancer in the twelve sequenced Drosophila species . Sites were predicted independently in each species using PATSER  and mapped onto an MLAGAN  multiple alignment of the eve stripe 2 enhancer sequences. The height of the box representing each binding site is scaled by its PATSER p-value (taller boxes represent sites with higher predicted affinities). The top panel (grey shading) shows the positions of biochemically-verified (in vitro footprinting) binding sites . The indicated coordinates are for the multiple-alignment, which is longer than individual enhancers due to the high frequency of alignment gaps.