I have ~2000 sequences of a capsid protein from different serotypes of a virus. I aligned them to check the identity, and now I wanna study the protein properties, such aa composition, isoelectric point, molecular weight, GRAVY, instability index, etc. Should I analyze each of the sequences I have, or I can use a consensus one? (If using the consensus, what is the best software to get it?)
I really appreciate any help!