Removing redundancy

Selecting this option brings up a window asking you to select a threshold. If the percentage identity between two sequences (based on the current alignment) exceeds this value one of the sequences (the shorter) is discarded. The redundancy calculation is done when the Apply button is pressed, and the undo button recovers the original set or any previously calculated subset. The detection of redundant sequences involves a pairwise comparison of all the sequences, so you may have to wait a few moments when applying this to large sequence sets.