How does Stanford HIVdb indicate mutations?
A shorthand consisting of the consensus B amino acid followed by the amino acid position followed by the amino acid in a sequence is used. Amino acids are indicated using the one letter amino acid code, The presence of more than one amino acid following the position number indicates that there is a mixture of genotypes with different amino acids at this position. We also use some symbols in addition to one-letter amino acid codes; # for an amino acid insertion; ~ for an amino acid deletion; X for a mixtures of four and more amino acids; * for a stop codon; a dot for an unknown amino acid. The partcular gene in which the mutation is present – RT, protease, or integrase – should be clear from the context of the web page.
