Vector NTI Advance is a program that offers unparalleled, multi-modular, integrated sequence analysis and data management tools. It provides multiple sequence alignment of proteins and DNAs, alignment statistics, cladograms, alignment editing, annotation and repeat identification... (
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The program works with the following extensions: 
mv, 
gd, 
gp, 
gv, 
pq, 
rp, 
ta4, 
ga4, 
gff, 
ixm, 
oa4, 
pa4, 
ps5, 
rgl, 
rpd, 
ua4, 
an8 and 
ea4