Heavy rain on Friday night forced raw, untreated sewage to be pumped into the Brisbane River for two hours after a fault at Queensland Urban Utilities' main sewage plant at Eagle Farm.

The storm rains flooded the sewer pipes at Eagle Farm, forcing the raw sewage into the Brisbane River at three locations; Coronation Drive at Toowong, Lytton Road at East Brisbane and at Eagle Farm for two hours at an unsubstantiated 5000 litres of untreated sewage per second.

The Queensland Urban Utilities pump plant at Eagle Farm, where a fault caused sewage to be pumped into the Brisbane River. Credit:Tony Moore

A former staff member emailed Fairfax's Brisbane Times to say raw sewage was "pouring into the Brisbane River at the moment at a rate of around 5000 litres per second."

"They had several failures to their five pumps earlier in the week," the source said.