He also wondered why this sarcophagus has capture attention, though most of the discovered stone sarcophagi are sealed and intact, and are more luxurious and elegant than the one found in Alexandria.
Several historians believe that someday the remains of King Alexander may be discovered on top of the city.
The ministry said it was likely that sewage water had seeped through a fracture in the coffin.
Waziri said that claims that the sarcophagus might contain the mummy of Alexander the Great or Queen Cleopatra, or the New Kingdom's King Ramses II, are unfounded and far fetched.
Egypt's antiquities ministry had previously dismissed the chances of finding Alexander's remains in the sarcophagus.
Mustafa Waziri of Egypt's Ministry of Antiquities told local media the team assigned to crack open the gargantuan tomb managed to pry the 2000-year-old lid just 5cm off the box before being overpowered by the rancid odour of its contents.
The structure is nearly two metres high and three metres long, and is the largest of its kind ever found intact.
A handout photo made available by the Egyptian Ministry of Antiquities shows workers removing sewer water submerging three decomposed mummies after opening the black granite sarcophagus that was discovered in Sidi Gaber district, Alexandria, Egypt, 19 July 2018. And one of them appears to have a wound that's a result of being hit by an arrow.
He added: "We've opened it and, thank God, the world has not fallen into darkness".
But before the lid is closed on this discovery, the skeletons will be sent to the National Museum of Alexandria.
Manning, who said the archaeological find "looked like a non-elite burial", has a theory on its origins: that although the sarcophagus appeared to date back to the Ptolemaic Kingdom (305 B.C.to 30 B.C.), it may have been used a couple of times.
"I was the first to put my whole head inside the sarcophagus... and here I stand before you ..."