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HIV sequence database


  Conventional   Discontinuous  

Purpose: Align query sequence(s) to our premade alignments, or from your own alignment. Each input sequence produces a separate alignment. Details and help files below.

Query sequence(s)
icon Paste your sequence(s) here
[Sample Input]
or upload sequence file
Organism HIV-1/SIVcpz  HIV-2/SIVsmm   Other SIV   other icon
Sequence type nucleotide amino acid let program decide

Alignment use LANL database alignment icon
use user alignment icon
icon Delete gaps and shift alignment to C-terminus yes no      (for proteins only, useful for T-cell epitopes)
icon Display wide output yes no
icon Calculate frequency by position and show logos    cut-off % icon
icon Remove residues from logos consensus of alignment consensus of seq group
residues of 1st seq of alignment residues of 1st seq of seq group
show all
icon Include surrounding region
icon Mark potential N-linked glycosylation sites yes no      (for proteins only)


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last modified: Tue Jan 26 11:13 2016

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