To survey the food-borne pathogens and investigate the occurrence and distributing trends of food-borne pathogens,find out food with high risk. so as to provide scientific evidence for the prevention of food-borne diseases. Methods A total of 4 926 food samples were collected from the recent 5-year food hygiene supervision to detect microbial indexes according to GB standard methods and food hygiene standards. Results The eligible rate of microbiological detection was 85.77%, and 27 pathogenic bacterium was detected. Over limit of Coliform bacteria are mainly bacteria problems. Cold snacks beverages showed the lower eligible rates than the other food, and the lowest eligible rate was in the food of winter. Conclusion The health status of the food samples are not perfect. To improve the food safety of port food, the needs of GMP, strengthening daily management and personnel training, regulating the processing cycle was urgent.