Apparatus and methods for clock and data recovery are disclosed. In one embodiment, a clock and data recovery system includes a sampler, a deserializer, a phase detector and a frequency detector. The sampler may be configured to sample a serial data stream to produce data samples and transition samples. The deserializer may be configured to deserialize the data samples and the transition samples to produce deserialized data samples and deserialized transition samples. The deserialized data samples and the deserialized transition samples can be aligned and provided to the phase detector and the frequency detector, thereby improving phase alignment and cycle slip detection.