Juancheng Yellow River Highway Bridge is the largest externally pre-stressed concrete continuous box-girder bridge with corrugated steel webs in the world with the total length of 1460m and span arrangement of 70m+11×120m+70m. Based on the monitoring practice for this bridge construction, the paper illustrates the application of the two modeling methods for box-girder with corrugated steel webs in the calculation of alignment control using bridge analysis system GQJS, i.e. the one-node method and two-node method. Additionally, the comparison between the measured and predicted deformation under different construction stages including cantilever construction, closure construction, system transformation and external prestress tension is presented and discussed. The results turn out both the two proposed modeling methods can perfectly meet the requirements of alignment control of this kind of bridge.