It's only counting additional calories burned on top of basal metabolic rate. Of course, the car will get you there faster (less time in transit), so basal metabolic calories will ALSO be lower in the car...
Speed greatly depends on your location, I highly doubt the majority of commutes in Berlin (where I'm at) will be significantly (if at all) faster by car than by e-bike - seeing as the ubahn tops at 45 mph & is quite often quicker to get around town than driving.
I suspect the same is similar to any major (and therefor congested) urban area.
The real killer is the American-style sparse suburban living that requires long commutes on highways...