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HIV sequence database


Sequence Alignment Publishing Tool

Purpose: This interface takes a sequence alignment (nucleotides or amino acids) and replaces residues identical to a reference sequence with dashes. The reference sequence is either the first sequence in the alignment, or SeqPublish can create a consensus sequence and use that. You can download your alignment, including the consensus sequence, to use in analyses.

Paste your input here
or upload your file

Output-aligned Format
Width of blocks (chars/block)
Number of blocks per line (blocks/line)

Check to create a consensus for your alignment and fill out the information below
Unanimity threshold ("Unanimous" consensus symbols are shown as capital letters.)
Majority threshold ("Majority" symbols are shown as lowercase letters. When no majority occurs, a "?" appears.)
Ignore trailing blanks (If your sequences have different lengths, the ends of shorter sequences will be padded with blanks. When this box is checked, these blanks will be ignored when creating the consensus.)
last modified: Thu Feb 1 16:31 2018

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