Highlighting Sequence Alignment

Stu Johnston sjohnston at watson.princeton.edu
Sat Jun 22 18:25:40 EST 1996

I am making a sequence alignment figure and would like to highlight(in 
black and white) the conserved regions between the different sequences.  
I have tried using several drawing programs (Canvas and Freehand) but 
this is labor intensive and the background boxes often print slightly 
differently than what is viewed on the screen.
In addition I have looked into MacVector and the Wisconsin GCG package. 
I found out the latest GCG update wiil due this using the prettybox 
command, but unfortunately this update has not been installed at my 

Does any know of any available programs which will do this highlighting 
automatically and how I might obtain a copy?  Or recommendations on the 
best way to construct such a figure?

Thank you

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