Despite the return of fit-again Gareth Bale, Villas-Boas' team rarely threatened Stoke's goal on Saturday, and Asmir Begovic's only important save came in injury time when substitute Gylfi Sigurdsson tested him with a close-range header.
The result means Tottenham head to Aston Villa on Boxing Day outside the Champions League qualification places.
But Villas-Boas remains convinced his team are on course to achieve their objective of a top-four finish.
He said: "I think we have enough to finish top four. It doesn't shift because of one result.
"There's a lot of teams with 30 points so even if the teams get a couple of points the difference is minimal. The Premier League is like that.
"The team that sits third the other day now sits sixth or seventh in the league."
Stoke, meanwhile, are now eight matches unbeaten for the first time since they earned promotion to the Premier League.
Potters boss Tony Pulis, however, is not getting carried away.
"We still need 14 or 15 points to stay up," the Welshman said.
"That will always be our priority - staying up.
"Then we'll try to get a little bit better and better."
Villas-Boas had praise for Stoke after the game.
"I totally respect Stoke," he said.
"What they have achieved this season is tremendous because it gives credit to Tony Pulis' work. You don't expect to play Stoke and for them to take the game easily.
"I admire other types of football. But you have to respect them. It's not easy when you give so much possession to the opponent and you have to defend but all credit to them and their work."