What is the current highest rated chess engine? http://www.computerchess.org.uk/ccrl/4040/ - Indicates that it is Komodo 10 but I am not completely sure this is up to date.
CCRL has not tested Komodo 10.1 yet.

IPON has:  http://inwoba.de/

2016.07.23
Komodo 10.1 with a plus of 8 Elo in the full list and 11 Elo from one RRRL to the next.
This version would not be tested because it is to close to the last release but as it is the reigning world
champion it should be integrated.

1 Komodo 10.1    3253
   2 Stockfish 7   3228