This paper aims to further the understanding of the mixing process of in-line twin synthetic jets (SJs) and their impact in the near-wall region in a flat-plate laminar boundary layer. A numerical study has been carried out, in which colored fluid particles and the Q criterion are used to track the SJ-induced vortex structures at the early stage of the evolution. Interacting vortex structures at four selected phase differences are presented and analyzed. It is found that the fluid injected at the early stage of the blowing stroke mainly contributes to the formation of the hairpin legs, the fluid injected near the maximum blowing mainly contributes to the formation of the hairpin head, and the fluid injected at the late stage of the blowing stroke contributes very little to the formation of the hairpin vortex. It is also confirmed that, irrespective of the phase difference, the hairpin vortex issued from the upstream actuator is more capable of maintaining its coherence than its counterpart issued from the downstream actuator. The influence of the interacting vortex structures on the boundary layer is also studied through investigating excess wall shear stress. In all cases, a pair of streaks of high wall shear stress can be observed with similar size. Among them, the streaks have the strongest wall shear stress, with the largest gap at phase difference 0 when partially interacting vortex structures are produced. The findings can provide valuable guiding information for the applications of synthetic jets in heat transfer, mixing control, and flow control in a crossflow.