India beat South Africa by a solitary run here Tuesday but failed to qualify for the semifinal due to Pakistan's superior run-rate.
India, who ended the tournament tied with Australia and Pakistan on four points, needed to restrict South Africa to 121 or less to qualify for the semis after scoring 152 for six.
South Africa lost the match narrowly but put India also out of the tournament by scoring 151 all out in 19.5 overs.
"If you take the Australia game out, where the rain intervened, we performed brilliantly and can't have control over how other teams played," said Dhoni.
Australia had thrashed India by nine wickets and more than five overs to spare.
"Overall I'm quite happy with how the team performed. There were instances where we should have had 10-15 runs more on the board. We lost too many wickets early," Dhoni said talking about the final match against the South Africans.
South African captain was left disappointed by his team's performance in the tournament as they lost all three of the Super Eight matches.
"Disappointed isn't the word to describe it, we've had a poor tournament," AB de Villiers said.
"We've let the country down and that's what hurts most. We did all the preparation possible, we thought we were ready but the guys didn't click," he said.
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