Setting the timing after replacing timing chain

The timing chain is aligned first to the timing marks and then the distributor.

That's not a concern. The cam position is what determines the compression stroke.

TDC compression does matter for the distributor but it isn't established until the cam is set into position. The diagram I gave you should be TDC compression but verify it with your thumb or compression gauge.

INSTALLATION

NOTE: If engine has been rotated since distributor removal, turn engine clockwise until No. 1 cylinder is at TDC of compression stroke.

Clean top of block around distributor opening.
Replace O-ring on distributor housing, and lube with clean motor oil.
Install rotor on distributor shaft
Position distributor into its original position. Engage distributor shaft with slot in oil pump drive gear.
Turn distributor until rotor is aligned with CYL. NO. 1 mark on camshaft position sensor.
Install distributor hold-down bolt and clamp and tighten.
Connect camshaft position sensor electrical connector.
Install distributor cap.
Connect negative battery cable.

Check your firing order.

Well, if you thinks it's 180 out then try moving it.

Sure, could be dozens of things. Sounds like you need some local help to get this diagnosed. I can't begin to know what's going on from here.