HIV Sequence Database
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Programs and Tools
Search Interface retrieves HIV and SIV sequences, which can then be aligned and used to build trees Geography Search Interface retrieves HIV sequences based on geographical distribution Tools for working with sequences lists all our online tools, organized by function Alignments
HIV Premade Alignments includes Consensus and Ancestral Sequences, Subtype Reference Alignments, and Complete Alignments |
Information
HIV Sequence Compendium print or order our annual publication Tutorials and other information unpublished web-based content Links to other HIV/AIDS tools and information About this website
FAQ general information about this website Site Statistics usage information for www.hiv.lanl.gov |
Quality Control Tool
The QC tool analyzes HIV-1 nucleotide sequences to help identify a variety of problems. The tool compiles output from BLAST, RIP, TreeMaker, Gene Cutter, and HyperMut. The results are given in a user-friendly table, with links to more detailed output for each analysis. An optional second step can prepare HIV-1 sequence sets, together with related data, for submission to GenBank.
04 March 2010
Batch RIP
The RIP 3.0 viral subyping tool can now accept multiple sequences at once. The results are returned by e-mail in a summary format. Links from the summary page lead to fully detailed results for each sequence.
23 February 2010
Quick link to NCBI's sequence viewer
We have added a quick link to view sequences retrieved using our search interface
using the very nifty NCBI Sequence Viewer. The viewer shows the equivalent GenBank
sequence, and therefore does not contain any of our added annotation. We hope to
add this feature in the future. The link is accessible by clicking on the yellow-
and-green icon that displays the sequence region in the search results.
07 January 2010
Erratum for HIV Sequence Compedium 2009
This erratum contains the correct HIV-1
Vpu alignment---the HIV
Sequence Compendium 2009 erroneously contains a second copy of the Vif
alignment instead of the Vpu alignment.
16 December 2009
