Correct positioning of flywheel

What is the correct proceedure for aligning the flywheel and the crankshaft on a D4-5T, 4 1/4 inch bore 4400 engine. I took the flywheel off to clean and paint benind it and failed to align the timing marks on the flywheel with the pointer on the bell housing. On the back side of the flywheel (the side that goes toward the crankshaft) there are two sets of timing marks that line up with the pointer on the bellhousing. One says TC 2-3, the other TC 1-4. there is also a T stamped half way between these two timing marks that lines up with one on the holes in the outside of the flywheel. TC 2-3 is close to the fitting in the back of the flywheel used to grease the pilot bearing for the clutch. There is a single line(about an inch long)that runs from the center of the crankshaft toward one of the bolt holes on the face of the crankshaft where the flywheel bolts. It is hard to tell if this is a line up mark or if it is just a scratch!! My book on this engine calls for timing marks to insure the flywheel is in the correct postition on the crankshaft. What do these marks look like and where are they found? With the absence of marks the only way I see to insure the flywheel is in the correct position is to bring No. 1 cylinder TDC and place the flywheel on the crankshaft so the TC 1-4 marks are aligned with pointer in the hole on the bellhousing. What position will the key in the front of the motor be when the NO.1 cylinder is TDC. Anyone with some knowledge on this topic would be greatly appreciated

On all the older engines there will be that scratch mark or a chisel mark on the crank & also there is one on the flywheel so all you do is line these two chisel marks together & you are in business.Later engines have an off set flywheel hole so you can,t get the flywheel on wrong. If for some reason the flywheel mark is missing then what you can do is take the front #1 nozzle out & take a welding rod or whatever & get TDC that way.To check the TDC firing cycle you,ll have to remove the side cover from the inj. housing & bring the engine up to TDC as I mentioned & the front # 1 lifter screw will just be starting up from the bottom. If it isn,t give the engine one more full turn & see what you have then. I should have also said when you get TDC you,ll have to line the timing marks on flywheel to the pointer inside the bell housing.I think you,ll see how it goes when you get into it.

The normal alignment is indicated by a chisel mark on the end of the crankshaft that should align with a similar mark on the flywheel.
The TC 1-4, 2-3 are your injector timing marks.
Take the side cover off the injection pump and rotate engine until you see #1 injector pump (front is #1) rising to the TC-1 mark. If the pump is in the raised position at the flywheel mark and you are on the compression stroke for #1 cylinder you are timed. I never payed attention to the front keyway so can't answer you there.

Thanks for the replies. I made a second look with a strong light and an idea what I was looking for and found the marks both on the flywheel and crankshaft. The flywheel, new pilot bearing, and clutch are ready to go. Here are some pictures of what I"m working on. It is slow, but it's showing some progress if the $$$$ and time hold out. Once again thanks for the help.