A horseshoe vortex (HV) at a wing-body junction introduces the reduction of wing performance. Vortex Generator (VG) is effective for the performance improvement. However, the loss is increased depending on conditions of flow and VG because of passive scheme for the flow control. Then, in this study Active Vortex Generator (AVG) which can change angle of attack of VG is utilized. The purpose of this study is to clarify the phase-averaged behavior of a HV with a pair of longitudinal vortices (LV) generated by AVG. NACA0024 wing at zero angle of attack was mounted in a wind tunnel. We measured three-components of velocity by the rotating X-probe hot-wire anemometer and total pressure by Pitot probe. In the Common Flow Down case, HV moves away from the wing and merges with LV. In the Common Flow Up case, HV moves toward the symmetry plane (Z/T=0). Dependence of VG angle on the total pressure loss under the vortex interaction is also clarified.