"I apologize if where was a misunderstanding," Lopez told the Guatemalan radio station Emisores Unidos. "It was a mix-up. We were referring to information generated from the area that there was possibly a crime scene with a dead person resembling El Chapo."
Authorities mounted the search Friday in the tropical state of Peten, an isolated area known for the transport of livestock.
"As of now, we have no verification," Lopez said.
An Associated Press photographer in the area also found no signs of shootout or victims, just a checkpoint of 12 soldiers stopping vehicles in an area considered to be held by Mexico's Zetas cartel, Guzman's biggest rivals.
Guzman heads the Sinaloa cartel, Mexico's most powerful international drug-trafficking network, and has been in hiding since escaping from a Mexican prison in a laundry cart in 2001. He is one of the world's most wanted fugitives, as well as one of the richest. Forbes magazine has estimated his fortune at $1 billion.
Lopez said on Thursday that authorities were investigating whether Guzman was one of at least two men killed in the remote area. But the government later backtracked and said it had only received reports of a battle from local people.
Government spokesman Francisco Cuevas first told Guatevision Television that two drug gangs had clashed in Peten, an area that has seen an increase in drug violence and that at least two men had died in the shootout.
Later, Cuevas told Mexico's Televisa network that authorities hadn't yet found a body or the scene where reports said a shootout took place.
He never said what led officials to think that one of the dead men might be Guzman.
Associated Press writer Sonia Perez contributed to this report from Guatemala City.
Copyright 2013 The Associated Press.