A 29-year-old man was arrested after he allegedly set fire to two flags at a 9/11 memorial at the Port Authority Bus Terminal, law enforcement sources said.

Jeremias Venegas is accused of burning an American flag and a Port Authority World Trade Center Tribute flag around 11:30 p.m. Sunday at the north wing of the Manhattan terminal, sources told The Post.

Authorities were able to get video of the alleged vandal and he was arrested early Monday morning by Port Authority officers, according to sources.

Venegas was charged with arson and criminal mischief.

Sources said the Port Authority will have a flag raising ceremony Wednesday morning to replace the damaged flags.

The Port Authority lost 84 employees in the 9/11 terror attacks, including 37 who were members of its police department, according to the agency.