Has anyone used this program to compare conserved regions in aligned proteins?
I've aligned several (5) protein isoforms with PILEUP and used PLOTSIMILARITY
to illustrate such regions. How does the program work? Does it take conservation
into account when it does the averaging or is it simply a matter of counting the
number of G's, etc. within each "window" then deriving a number which is added
to all the other windows to calculate the "average"? Thaks for any help
Colin
Colin Dolphin Email: c.t.dolphin at qmw.ac.uk
Biochemistry Tel: (44) 71 975 5555
Queen Mary & Westfield College FAX: (44) 81 983 0531
London E1 4NS, UK
