The invention discloses a method and system for recognizing an atrial fibrillation rotor site. The method comprises the following steps: S1, acquiring a first preset number* M endocardium bipolar electric signals and a second preset number* N endocardium bipolar electric signals from a database, wherein M and N are positive integers; S2, determining the average perimeter of atrial fibrillation according to the second preset number* N endocardium bipolar electric signals; and S3, carrying out dispersion analysis on the first preset number* M endocardium bipolar electric signals according to theaverage perimeter of the atrial fibrillation, and recognizing the atrial fibrillation rotor site. The method has the beneficial effects that the atrial fibrillation rotor site is accurately recognized from a first preset number of sites by a dispersion analysis method, false-positive rotor sites are reduced, an accurate target spot is provided for guidance of atrial fibrillation radiofrequency ablation, and iatrogenic injury caused by excessive ablation is relieved.