@ElizaBennett - The project did finish ahead of schedule, but I'm not sure if that was because there were fewer genes and/or just because the technology improved, etc. and they made better progress than expected.
Another surprised that turned up as scientists worked on the complete genome sequence of various species is that we are not as closely related to other primates as was thought. For instance, they thought we shared 98.5% percent of our DNA with chimps, but it turned out to be more like ninety-five percent. That may not sound like a big difference, but apparently it was surprisingly significant to scientists.