Further tests were being carried out to confirm what the cause of the high bacteria level was.
The spokesman also said the test result had been a surprise _ given Mission Bay normally had no water quality problems.
"There's a whole range of possible causes. It could be a whole lot of dog poo washed up somewhere, it could be a dead animal's carcass floating by, it could be a bag of stinking old nappies that someone's dumped overboard, it could be someone flushing out the waste system on their boat,'' he said.
The result could also have been from a false positive, Mr Maxwell said.
He advised people to stay out of the water at Mission Bay in the meantime.
"This result is surprising. Checks of the wastewater and stormwater network do not indicate a network problem and there have been no reports of overflows.''
Further test results were expected to be available tomorrow afternoon.