Top Dead Center (TDC) on compression stroke?

When dialing in the position of the camshaft on a CB350 K3, should the rotation of the engine that displays and aligns all of the indicator marks for TDC be the same stroke that generates compression in the left cylinder, I/E the compression stroke?

When turning the rotor with a spanner my engine is currently producing compression in the left cylinder while the "L" mark is 180 degrees from the TDC position of the engine on the cam sprocket. All of the indicator marks on the rotor and on the cam sprocket line up and the valves are opening and closing in their proper sequence.

I guess what it all boils down to is should the compression stroke also correlate with all the other TDC marks for the engine or does it not matter as long as everything else is timed accordingly? I'd like to know for certain before going through the trouble of breaking my cam chain and potentially undoing all of the work I've put into timing everything.

Thanks,

Aaron.