A method and system for synchronizing a lidar and a camera on an autonomous vehicle. The system instructs the camera to detect light columns transmitted by the lidar. The system iterates through various start times for the camera. The system instructs the lidar to emit a plurality of light columns at a lidar frequency. The system instructs the camera to capture images at a camera frequency starting at each start time. The system analyzes the image data received from the cameras to identify light columns captured in the images. The system calculates an alignment score for each of the many start times based on the identified light columns. The start time with the optimal alignment score is selected and used to synchronize the lidar and the camera. With lidar data detected by the synchronized lidar and image data captured by the synchronized camera, the system may navigate the autonomous vehicle.