Topographic data and river section data of the lower reaches of the Minjiang River come from Fujian Port and Navigation Administration Survey Center (FPNASC). In addition, the latest chart information was supplemented near the sea, and the elevation is Luo-zero elevation. The outer boundaries of the model were set according to external conditions, and the flow and tide data (two maximum and minimum values in a day) was obtained from the Year Book of Hydrology P.R. CHINA (YBHC) in 2013. The water quality data onto the regular monitoring points of the Minjiang River come from FRAE [17]. Water samples were collected with Niskin bottles at 1 m below the surface, and the distribution of the monitoring points are shown in Figure 1. Data of automatic water quality monitoring station is every 4 h and routine monitoring data is monitored every month. Water quality monitoring is carried out according to China National Water Quality Standards (GB3838-2002). The concentration of TN, TP, NH4+, and DO were measured using an automatic water quality analyzer (AA3, SEAL, Ludwigshafen, Germany). In addition, the samples were taken to the laboratory, and BOD5 was determined by the diffusion and seeding method.

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