Figure 1.

The graphs show conservation in the alignments as measured by information content: C=∑_if_ilog₂(f_i/q_i) where i sums over the four nucleotides, f_i is the frequency of nucleotide i in the column and q_i =1/4 is used as the background frequency. Ambiguous nucleotide symbols were evenly divided between the corresponding f_i, gaps between all four nucleotides. The grey line represents the value for each position in the alignment, the black line is a running average over 75 nt around the current position, whereas the white dot indicates the center of the most conserved 75 nt region of the alignment.