I have a file with protein sequences for which I would like to know the similarity score of the multiple sequence alignment.
I have aligned these sequences using ClustalW, but all I get is the pairwise identity score !
I am not looking for the pairwise identity or similarity score, but the similarity score of the multiple sequence alignment, so that I can conclude that "this group of sequences are x% similar with each other".
Is there any tool that gives a measure of similarity of the sequences ? Or any method for calculating this score ?
Please help !
Thank you, Ananth