Your system won't mean squat without a well designed box to put your subs in. Some manufacturers have recommendations as to dimensions of various types of boxes. It is best to find someone who builds boxes if you go with something other than a sealed box.
YES, you should always match up RMS (Root Mean Square) watts of Subs and amp per channel.
You should use a capacitor as well.
Recommend for every 500 watts MAX you use a .5 Farad cap
Example: 1000 watts MAX - 1 Farad cap
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You will also need what's called a "line level converter" if your stock stereo doesn't have RCA outputs or your amp doesn't have high-level inputs.
If you like I can send you some plans for reference if you'd like. My plans are for a 4-th order band pass bass box that holds two 12's. Just e-mail me sparky3489@yahoo.com
I chose Blaupunkt TSw1200 subs with a Sony Xplōd XM2200GTX and it moves my coffee table around when I'm in the driveway.
Amp is:
400 W X 2 (at 4 Ω)
600 W X 2 (at 2 Ω)
1200 W X 1 (at 4 Ω)
200 W X 2 (at 4 Ω) RMS
250 W X 2 (at 2 Ω) RMS