An optical coherence tomography system utilizes an optical swept source that frequency scans at least two different sweep rates. In this way, the system can perform large depth scans of the sample and then the same system can perform shorter depth high precision scans, in one specific example. In order to optimally use the analog to digital converter that samples the interference signal, the system further samples the interference signals at different optical frequency sampling intervals depending upon the selected sweep rates of the optical swept source. This allows the system to adapt to different sweep rates in an optimal fashion.