Other than JavaScript, which you're executing right now to post this comment?
Web app usage is huge, and there isn't going to be any shift to native code there anytime soon. NaCl (not PNaCl) has been dead as a proposal for Web content for a long time. That's because JITs actually do allow for better portability.
Edit: OK, HN doesn't actually use JS, so mea culpa on that rhetorical flourish. Still, the point stands that you're using the Web a lot, and that's a testament to the success of JITs.