If you take a real good look at this shot, it did not hit the pin. No pin sound at all. Looks to have been at the hole too fast and bounced off the backside of the hole. Putt too hard IRL and this happens all the time. Treat this as a too hard putt and the same thing could have happened.
Replays most always show the pin in. Just remember, pulling the pin after the shot is not the same as before the shot. Yours appears to be done before, otherwise you would have heard it hit the pin.