FIG. 8.

Genome-wide deep sequencing of the SIVmac239 stock used for the IR challenges. Heat map illustration of the level of sequence variation across the SIVmac239 genome detected from 454 deep sequencing. Plotted is the percentage of amino acid diversity at each position across the genome with the first amino acid of Gag located in the top left corner of the grid and the last amino acid of Nef located in the bottom right corner. Completely conserved codons are black, and low-level variant residues (<10%) are colored light blue.