Number your images sequencially using zero prefixes ( 001,002,003 . . .). Open Quicktime and choose "file - open image sequence". Select the first image in the bunch and quicktime does the rest. Not sure about the alpha channel. You may have to chroma key the movie to make your composite. Use the "animation" codec for your export. In my opinion, it will key a little more cleanly than using the dv codec.
jimi