Michael D. Baron Ph.D. (michael.baron@bbsrc.ac.uk)

Senior Research Scientist
Institute for Animal Health
Ash Road,
Pirbright,
Surrey,
U.K.

MACBOX v2
A Macintosh port of BOXSHADE

BOXSHADE is a program for creating good-looking printouts from multiple  aligned
 protein or DNA sequences. The program does no alignment by itself, it has to ta
ke as input a file preprocessed by a multiple alignment program or a multiple fi
le editor.

Input: a set of aligned sequences in a GCG-type MSF file. If you have your align
ment in another format, use ReadSeq, SeqPup, or SeqVu to convert it.

Output: supported formats are PICT, PS, EPSF, RTF and plain ASCII files. The PIC
T and ASCII outputs can also be displayed on the screen in their own windows. Th
e shading/colouring can be by sequence conservation, similarity to a TmasterU se
quence, or by residue type. Sequence names and numbering can be included as requ
ired, as can a ruler line.
The program can also calculate a similarity/identity matrix.

Full documentation is included in the package, and the program has a built in He
lp facility.