Cylinders are always numbered from the front of the engine, back. 1 is closest to the pulleys (left side of car, to your right when looking at it from in front). 4 is closest to the transmission (toward right side of car, your left when looking at car from in front) like Carbuff2 said. Yes, the drivetrain is reversed is 1990s Hondas, so most cars have the engine and transmission the other way, but don't worry about it, my direction are correct here.
Most single cylinder misfires I've seen are caused by bad spark plug wires. I could be something else, of course, but I'd change the wires first. Make sure to change all 4. I'd recommend getting them at AutoZone because their's have a lifetime warranty, so when you need new wires again, you get them free.