The paper used the measured data from 6 typical meteorological stations and 2 hydrological stations on main streams of Meiyaogou river and Alagou river during period of 1960-2012 and applied Mann-Kendall non-parametric order test method and Pettitt change-point test method to analyze the trends of climate change and runoff. Results showed that from 1960 to 2012, the annual precipitation in Turpan and its surrounding areas showed a certain upward trend but did change significantly. The mean temperature increased while the sunshine duration and the mean relative humidity decreased. The runoff out of the mountains along Alagou river increased obviously while that along Meiyaogou River did not increase obviously. The precipitation, mean temperature and mean relative humidity possessed a positive correlation with runoff, while the sunshine duration had a negative correlation with runoff.