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Runoff series of the Yangtze River presents an intricate variation tendency under the reinforced influence of human activities.The Morlet Wavelet Transform method has been applied to analyze the annual runoff data from 1950 to 2011 at Datong Station in the Yangtze River, it can clearly reveal the multi-time scales structure, break point, change and distribution of periodic variation in the different time scales of the runoff series.