The comments, which are sure to spark controversy, came after reports in the national media that two players in the Italian squad were homosexuals.
A hastily written statement issued on the official website of the Italian Football Federation last night clarified the Italian talisman's views.
It said: "I sincerely regret that my statements have sparked controversy and protest from gay rights groups.
"Homophobia is a sentiment that is not mine. I did not want to offend anyone and I can not question the sexual freedom of other people.
"I only said that it is a problem that does not concern me and it is not for me to pass judgment on the choices of others, who are all respected."
The apology came after Cassano responded to questions about reports in Italy which claimed there were two homosexual players in Cesare Prandelli's 23-man Euro 2012 squad.
Cassano reportedly said. "If I say what I think...I hope there are none. But if there are queers here, that's their business."
In response, the Justin Campaign said: "Once again we see a top footballer making homophobic comments to the media. Once again we see footballing authorities making a hasty u-turn in clarifying the words said to avoid a PR disaster. Once again the world receives an apology.
"With such a backdrop is it any wonder why footballers don't openly admit their sexuality?
"This is about more than PR management, it is people's lives. Change will not happen overnight. But Cassano's comments are at best unhelpful, at worst homophobic, and football needs a better example set by its figureheads if true equality is to be reached on and off the pitch."