Hi all,

I have a list of 60 different insertion and deletion mutant proteins, and I’d like to perform a multiple sequence alignment comparing each mutant with the wild-type sequence. The Needleman-Wunsch global alignment tool on NCBI works well, but it only allows aligning a single mutant with the wild type at a time.

Do you know of a way to perform this global alignment on multiple proteins from the mutant list in one go?

Note that standard local alignment tools don’t work properly, as they tend to mismatch the insertion or deletion mutations (stretches of 5 to 10 amino acids) with the wild-type sequence.

Thanks