plotsimilarity ?

Dr. C. Dolphin cdolphin at crc.ac.uk
Tue Apr 12 12:31:52 EST 1994

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 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

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