The Air Force was targeting Boko Haram Islamist militants.
"Somehow, some civilians were killed. We are yet to ascertain the number of persons killed in the air strike," Irabor told reporters.
"Many civilians including personnel of International Committee of the Red Cross and Medicins Sans Frontieres were wounded," he said.
This is not the first time Nigerian army officials admitted such errors.
The Boko Haram extremist group began large-scale attacks in northeastern Nigeria in 2009. The extremist group has pledged allegiance to Daesh terrorist group.