You put the plug wires anywhere you want as long as 1)you have them in the correct firing order, and 2) you have placed the distributor body and the distributor rotor such that the rotor is coming up on wire #1's spot when the crankshaft is coming up on TDC and the camshaft is on the #1 compression stroke.
It doesn't matter where the distributor itself points as long as everything lines up timing wise.
To start, put the engine at TDC, #1 on compression. Pull the cap. If the rotor points to near where the #1 PLUG WIRE is located, then you should be good-to-go. Set the timing. If the rotor does not point to #1, rotate the distributor until it is. If that is not possible, you have to remove the distributor from the engine, rotate the distributor while it is out, and then replace it back into the engine so that the rotor points to WHEREVER the #1 wire is in the cap. You can alternatively move the wires around in the cap to make things line up. The distributor doesn't care where the #1 is embossed onto the cap.
tom