Purpose: Make a consensus of IUPAC ambiguity codes for an alignment, or make multiple consensuses of blocks of sequences in an alignment. This site works only for nucleotide alignments. Characters considered are ACGTU.
Usage: Browse for your alignment file or paste it into the window, adjust the consensus options, and click "Run". You can specify a "percentage presence" which must be met by any character if it is to be considered in computing the consensus for a column. For example, the 11-letter column AAAAAAAAAAG would be scored as "R" if the percentage is 0, but would be scored as A if the percentage was 10%. In the latter case the G would be ignored since it makes up <10% of the total column. For details about the various options, see Ambiguity Consensus Maker Explanation.
