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Ambiguity Consensus Maker

Purpose: Make a consensus of IUPAC ambiguity codes for an alignment, or for blocks of sequences in an alignment. This tool works only for nucleotide alignments.

Usage: Browse or paste your alignment, choose options, and click "Run". You can specify the character presence percentage, which is the minimum representation required for a character to be considered in computing the consensus for that column. For example, a column containing 99 "A" and 1 "G" will be scored as "R" if the percentage is 0, but will be scored as "A" if the character presence is set at 1% or greater. In the latter case, the G would be ignored since it does not exceed 1% of the total. Note that all characters other than ACGTU are ignored. For details, see Ambiguity Consensus Maker Explanation.

Paste your alignment
Or browse for your file
Squeeze gaps in input  Yes   No      Gap character
Output Options
Do consensus for each block  Yes   No
Minimum number of sequencesfor consensus
Show both consensus + alignment  Yes   No
Show number of sequences in consensus  Yes   No
Outputformat  Pretty   Output aligned   Like input
Consensus-making Options
Character presence percentage
last modified: Thu Jan 21 12:44 2016

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