Velodyne SMS-1 Tuning, Can you use Different subs?

Hi there, I just got a Velodyne SMS-1, I am amazed by the tuning capabilities. Sadly Im not exceptionally computer literate, just enough to get by.

I have 4 pairs of stereo subs in my house and I want to play with them
2 Peerless XXLS 12' in 1.75ish Cu. Ft. Boxes
2 Velodyne HGS 12's
2 Older Speakerlabs 12's in 2ish Cu. Ft. Boxes downfiring
and 2 custom built dual 12" subs in a compund formation (facing each other and screwed together with one out of phase) in 3.5ish cabinets.

I am wondering If I can equalize a pair on either side and have a seperate channel for a second pair stacked? It says you can do 3 subs but would that be 3 of the same subs or can I equalize each one individually?

Thanks

Toby