[1] The draw of the tournament was held on July 3, 2013, 12:00 UTC−3, at the Sheraton Hotel in Buenos Aires, Argentina.
[2] To determine the bracket starting from the round of 16, the defending champion and the 15 winners of the second stage were assigned a "seed" by draw.
The following were the seeding of the 16 teams which qualified for the final stages, which included the defending champion (São Paulo) and the 15 winners of the second stage (three from Argentina Zone, four from Brazil Zone, eight from ties between South Zone and North Zone): In the final stages, the 16 teams played a single-elimination tournament, with the following rules:[1] The bracket of the knockout stages was determined by the seeding as follows:[1] Note: The bracket was changed according to the rules of the tournament so that the two semifinalists from Brazil would play each other.
[8] A minute of silence was held in honor to the passing of two-time World Cup-winning Brazilian player Nílton Santos at both second leg games of the semifinals.
The finals were played on a home-and-away two-legged basis, with the higher-seeded team hosting the second leg.