Fine structures are found in the TJ-II stellarator electron temperature and density profiles, when they are measured using a high spatial resolution Thomson scattering system. These structures consist of peaks and valleys superimposed to a smooth average. Some irregularities remain in an ensemble average of discharges with similar macroscopic parameters such as line density, central temperature, and plasma current. They are found in all the magnetic configurations explored in plasmas heated by electron cyclotron waves. Their characteristics are shown and their possible origin is discussed.