Supplementary Figure 5 : Motif conservation by positional sequence constraints.

From: Quantitative genome-wide enhancer activity maps for five Drosophila species show functional enhancer conservation and turnover during cis-regulatory evolution

Supplementary Figure 5

(a) Pairwise sequence identity for functionally conserved (colored) and non-conserved (gray) enhancers along the entire 500-bp enhancer sequence or (c) for a 100-bp core enhancer sequence (boxes depict the median and the interquartile range, and whiskers depict the 10th and 90th percentiles). (b,d) Sequence identity as in a and c, respectively, but restricted to positions that overlap with motifs of the transcription factor Serpent (Srp). Note: a and b show the same data as Figure 3a,b to allow for a comparison with c and d, demonstrating that the results are robust with respect to the lengths of the analyzed regions (for b–d, n = 214, 338, 413, 196, 361, 216, 366 and 174, respectively). (e) Sequence identity as in b, but for the motif of the transcription factor Buttonhead (Btd), which is not expressed in S2 cells. The largely overlapping sequence identities of the Btd motifs in conserved and non-conserved enhancers indicate that the motifs for Btd in conserved enhancers in S2 cells are not under constraint. (f) Position weight matrix logos for the Srp and Btd motifs.