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After you are done with your toilet, you really should put your toilet seat down before flushing. The main reason why you should put the toilet lid down before flushing it is due to the phenomenon known as 'toilet plume'. When you flush a toilet, the water that swirls at high speed to remove the waste from the bowl shoots aerosolized faeces into the air. These aerosol plumes can reach as high as 15 feet.