Purpose: HIV BLAST finds the database sequences most similar to your query.
Details: Although our DNA database contains most of the same HIV sequences found in GenBank, doing the search here gives a more informative output. The output list will contain some of the fields we annotate, such as subtype, sampling country, isolation year, and the genomic location of the sequence alignment. See HIV BLAST Examples for tips in interpreting your output.
Input: One nucleotide or amino acid sequence may be submitted per run. The sequence can in FastA format or raw sequence.
Output style: See HIV BLAST Examples for examples of 'Pairwise' and 'Master-Slave' output.
Background options: The default is to BLAST your query against all sequences in the HIV Database. You can also search only the sequences with assigned subtypes, or sequences of one pure subtype. If you want to BLAST against your own submitted background set, browse for a file that contains those sequences.
Subsequent analyses: From the BLAST results page, you can:
References: BLAST references
