Shannon Entropy across the HIV-1 clade B proteome.

<p>All full length clade B protein sequences in the LANL HIV Sequence Database were aligned and assessed for Shannon entropy of each amino acid position. The red bars indicate entropy at each codon, and the heavy black lines plot mean entropy for the nine amino acids starting at each position. The shaded regions indicate relatively conserved regions that were examined further. Note that the numbering of the conserved regions (based on HXB2 position) does not necessarily match amino acid positions in the graphs (due to insertions in some sequences relative to HXB2).