2007 Chevy Cobalt Not getting spark on all cylinders

Well I recently ran into some water when we had a major flood. My car did suck up some water but I was able to get all the water out completely. I've drained the oil and check compression and we are in good standing there. Im getting fuel and im getting plenty of air but she won't start. I check my spark and im getting spark on only the #2 and 3rd cylinder. I've switched the coilpacks and they are all getting spark if I put them on the 2nd and 3rd cylinder. Spark plugs are also good. I've thought about the crank position sensor but then I got to thinking that I wouldn't get any spark if that was bad. Correct? Can my ECU you bad? I do have a CEL that won't go off but yet it doens't pull any codes when I try to use my code reader.