I hope I can explain what I want. I am comparing to proteins that have some regions that are 100%
identical, some that are variable etc. What I would like to do is a graph that shows a schematic
diagram of teh aligned proteins (NOT THE SEQUENCE) and then say that this region has such a identity
and that region such etc. Now, BLAST or FASTA give me an overall percentage identity but not a local
one. Since both proteins are >1000aa, I would prefer not to count by hand the percentages.
So, the question is: does anyone know a program that would give me local percentages (say in blocks
skip the ??? in my email ???przemko at sgi.celgen.kuleuven.ac.be. I hate spammers!!!