I have to check homology of short amino acid sequences (about 20 to 50 residues) ... there are around 300 of them.
I want to compare their homology, as in how many a.a are common/ conserved, how many possessing essential amino acids, etc...
I tried using Bioedit software for aligning those sequences.. but the alignment is'nt working..!
Could you please suggest any other software/program for comparing such short peptide sequences?
Or is there any other approach for doing it?