Files in this Data Supplement:
Fig. S1. Timecourse of pair-rule protein expression in the blastoderm. Superimposition of pair-rule protein expression patterns at four different time points during the blastoderm (cleavage cycle 14A, 10% strip without background, for T3-T7 registered by FDRWT); data are derived from Myasnikova et al. (Myasnikova et al., 2001) and were downloaded from FlyEx (http://flyex.uchicago.edu/flyex/). The y-axis shows the expression level in arbitrary fluorescence units. The x-axis is the percentage egg length (% EL), starting with 0 at the posterior pole.
Fig. S2. Graphic representation of new gap factor PWMs. New gap gene PWMs constructed using bacterial one-hybrid data (Noyes et al., 2008b), with comparison to our original PWMs (Rajewsky et al., 2002; Schroeder et al., 2004). See also Table S2.
Fig. S3. Dissection of the cis-regulatory region of h. Layout is as in Figs 3 and 4. Known elements are from Howard and Struhl (Howard and Struhl, 1990). In the inset showing the KR free energy profile, transparent overlays indicate the portions of the 1+5 element that give rise to stripe 1 (light gray) (Howard and Struhl, 1990) and a posteriorly enlarged stripe 5 (dark gray) (Pankratz et al., 1990).