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QuickAlign
formerly Epilign and Primalign

Purpose: Align a desired region from our Web alignments, with or without user-provided sequence(s). Details below.

Retrieve alignment(s) based on sequence
Paste your sequence(s) here
[Sample Input]
or upload sequence file
-- OR leave both fields above blank, and --
Retrieve alignment(s) based on coordinates
Sequence coordinates start end
Gene/region/protein

Options
Organism HIV1 HIV2 SIV
Sequence type nucleotide protein let program decide
Alignment type to use
Delete Gaps and shift sequence toward C-terminus (protein only) yes no
Display wide output yes no
Calculate frequency by position      cut-off %
Include surrounding region

Details

Help: Explanation files are available for QuickAlign Options and for QuickAlign Results. A list of reference sequence coordinates for the genes and regions of HIV is available on the Gene Map page.

Related tool: Sequence Locator provides additional location information, but does not produce an alignment to database sequences.

last modified: Fri Mar 16 10:24 2012


Questions or comments? Contact us at seq-info@lanl.gov.