I'd pull the signal right from the back of the factory radio and run those wires as short as possible and away from any other wires to the LC2. If you can use shielded wire and ground the shield only on one end than even better. I had to learn the hard way about ground loops, which can cause otherwise good components to not sound good at all and cause interference in others. The LC2 is capable of stepping up the line level voltage to 8 volts, which I recommend you do if your amplifier can take that much voltage on the input. Be careful where you run the RCA to, you don't want that anywhere near any other wires if you can help it. I found that straight RCA cables sounds better than the twisted RCA cables at least with full range anyway.
Good luck, I used the LC2 with my JL Audio 8" micro sub before I upgraded to the DQ-61. It's a good unit and even better with the control knob. It makes a really strong clean signal but be careful with the accubass setting because it's sensitive. Chances are you probably don't need it as I didn't with mine. If you don't like your sub than you must try a JL Audio sub, I promise you you'll never go back. These subs have enough SPL but they make awesome quality sound. My CX5 has the W3V3 ported and my Mazda 5 has the WXv2 sealed, which for half the price still sounds really good and all I run them with are some very old Alpine 150 & 160 watt RMS amplifiers, one on each.