HIVdb accepts user-submitted protease, RT, and integrase sequences or mutations and returns inferred levels of resistance to the most commonly used protease, nucleoside, non-nucleoside, and integrase inhibitors. Its purpose is educational and as such it provides extensive comments and a highly transparent scoring system that is hyperlinked to data in the HIV Drug Resistance Database. A detailed description of the program as well as all updates is in the Release Notes. A web service has been created to allow users to access HIVdb programmatically.
New: this program is now available for analyzing SARS-CoV-2 mutations, FASTA, and FASTQ (NGS) sequences.
Sequences can be entered as plain text if just one sequence is entered. Sequences must be entered using the FASTA format if multiple sequences are entered. Sequences can be pasted in the text box or uploaded using the File Upload option. The upper limit is currently 1000 sequences containing 3000 nucleotides per sequence.
By default the program output will contain an HTML page with a navigation sidebar linking to the results for each sequence. Users selecting the spreadsheet output options, will obtain links to tab-delimited files containing tabular sequence summary data, tabular resistance summary data, and a formatted amino acid sequence alignment. Detailed descriptions of the HTML and spreadsheet output are explained in the Release Notes.