Clustalw Higgins and Sharp 1988 1-Do pairwise analysis of all the sequences (you choose similarity matrix) 2Use the alignment scores to make a phylogenetic tree 3- Align the sequences to each other guided by the phylogenetic relationships in the tree New features: Clustal E ClustalW (allows weights)L ClustalX(GUI-based Weighting is important to avoid biasing an alignment by many sequence Members that are closely related to each other evolutionarilyClustalW Higgins and Sharp 1988 • 1- Do pairwise analysis of all the sequences (you choose similarity matrix). • 2- Use the alignment scores to make a phylogenetic tree. • 3- Align the sequences to each other guided by the phylogenetic relationships in the tree. New features: Clustal ⌦ClustalW (allows weights) ⌦ ClustalX (GUI-based Weighting is important to avoid biasing an alignment by many sequence Members that are closely related to each other evolutionarily!