None bar the last GT500 were real.
Cinema Vehicle Services actually produced 12 different "Eleanors" for use in the production of this film.
None of the 12 were actual Shelby Mustangs but converted standard 1967 Mustang fastbacks and are thus just customized 67 Mustangs that don't even look like a Shelby GT 500.
Of those cars, seven survived the filming in various states of repair. A 13th Eleanor, based on a real '67 Shelby GT500 was prepared by Cinema Vehicle Services for producer Jerry Bruckheimer, but that car did not appear in the film.
The only true Shelby GT500 in the movie was given to Nicolas Cage's character by Giovanni Ribisi's character at the end of the movie. The real owner consented to the vehicle being used as long as it was returned in the original condition. Every part that could be unbolted, was unbolted and replaced by a junked replacement part for the scene.
Tony