FIG. 1.

Phylogenetic analysis of brain- and lymphoid-derived Nef sequences. The consensus neighbor joining tree based on 10,000 reconstructions was created using MEGA 4.0 software using the Maximum Composite Likelihood method. The input CLUSTAL W nucleotide alignment included sequences from all patients and tissues. The scale bar (lower right) represents the length of a branch where 2 nucleotide substitutions occurred out of 100 total nucleotides. Significant bootstrap values (>95) representing the frequency out of 100 trees in which the node occurs are shown at the indicated positions.