timing issue

So, I am replacing the head gasket on a 1fz-fe, and essentially, what happened was I manually turned the crankshaft to clean some of the carbon build-up off the pistons without lifting the camshaft sprocket so the timing chain was loose. The chain moved with the crankshaft as the bright link is...

My non turbo 2L won't go higher then 3900RPM. If I push the pedal slightly higher it does not increase RPMs it instead just spews out black smoke. Would this be a dynamic timing issue? I've: Set factory static timing (1.06mm) New air filter Valve lash adjustment yelled at it hit it with my...