Figure 6. A Total of 383 Binding Sites for the Bicoid Transcription Factor Were Predicted Computationally (Using a Threshold) in D. melanogaster CRMs of the BLASTODERM.A-P Dataset.

(A) The number of sites that were aligned, versus the number of unaligned sites, using different alignments: Diamonds = LAGAN with varying gap penalties; red circle = Morphalign. (Green diamond represents LAGAN with lowest gap penalty.)

(B) Of the sites aligned by a method, how many were conserved (i.e., PWM match score above threshold) in D. mojavensis. Color code is as in (A).