Highlighter

Purpose: This tool highlights matches, mismatches, transition and transversion mutations, and silent and non-silent mutations in a set of nucleotide sequences that are aligned and in frame. It is particularly useful for allowing visualization of potential recombination and hypermutation in closely related sequences, such as those isolated from a single patient.

Details: If the "Change Masters" button is not clicked, the first sequence in the file will be taken as the master sequence if aligning against a single master. In case of multiple master sequences (during match), the top n will be chosen as master sequences. For descriptions of options and samples of output, see Highlighter Explanation.