This paper proposes a new and explicitly frequency-adaptive method for Virtual Flux estimation and voltage sensor-less grid synchronization under unbalanced conditions. The proposed system is based on using Second Order Generalized Integrators, arranged to simultaneously fulfill the purposes of frequency-adaptive band-pass filtering, integration and quadrature signal generation. This results in a simple and efficient structure for combined Virtual Flux estimation and separation into positive and negative sequence components. The properties of the proposed Virtual Flux model is analyzed theoretically, first as an integrator for implementing generic Virtual Flux estimation, and then with respect to sequence separation. The dynamic performance of the proposed estimation method is tested by simulations for the case of an unbalanced voltage drop in the grid and for a step in grid frequency. The simulations verify the performance to be as expected, with similar dynamics as synchronization based on voltage measurements.