But Pereira broke the deadlock in the 68th minute with a powerful close-range header after a Hector Canteros cross from the right, reports Xinhua news agency.
The result lifted Chapecoense to 14th in the 20-team standings, two points clear of the drop zone.
Sao Paulo were left fifth, enough to secure a place in next year's Copa Libertadroes, South America's top club competition.
In other last-day matches on Sunday, champions Palmeiras won 3-2 at home to Vitoria, Internacional drew 1-1 at Parana, Cruzeiro held Bahia to a goalless draw in Salvador, Fluminense secured a 1-0 home victory over America Mineiro and Gremio won 1-0 at home to Corinthians.
(This story has not been edited by Business Standard staff and is auto-generated from a syndicated feed.)