Sense of Agency (SoA) is the feeling of control over our actions. SoA has been suggested to arise from both implicit sensorimotor integration as well as higher-level decision processes. SoA is typically measured by collecting participants' subjective judgments, conflating both implicit and explicit processing. Consequently, the interplay between implicit sensorimotor processing and explicit agency judgments is not well understood. Here, we evaluated in one exploratory and one preregistered experiment (N = 60), using a machine learning approach, the relation between a well-known mechanism of implicit sensorimotor adaptation and explicit SoA judgments. Specifically, we examined whether subjective judgments of SoA and sensorimotor conflicts could be inferred from hand kinematics in a sensorimotor task using a virtual hand (VH). In both experiments participants performed a hand movement and viewed a virtual hand making a movement that could either be synchronous with their action or include a parametric temporal delay. After each movement, participants judged whether their actual movement was congruent with the movement they observed. Our results demonstrated that sensorimotor conflicts could be inferred from implicit motor kinematics on a trial by trial basis. Moreover, detection of sensorimotor conflicts from machine learning models of kinematic data provided more accurate classification of sensorimotor congruence than participants' explicit judgments. These results were replicated in a second, preregistered, experiment. These findings show evidence of diverging implicit and explicit processing for SoA and suggest that the brain holds high-quality information on sensorimotor conflicts that is not fully utilized in the inference of conscious agency.