Colouring above a percentage identity threshold

Selecting this option causes the colour scheme to be applied to only those residues that occur in that column more than a certain percentage of the time. For instance, selecting the threshold to be 100 will only colour those columns with 100% identity.

To be coloured, a residue must match the consensus (most commonly occurring) residue for the column (or joint equal consensus).

The percentage calculation may include or exclude gaps in the column, depending on the option selected for the consensus calculation.

With a threshold of 0, colouring is unchanged (including non-consensus residues).