Operating with short electron bunches at Synchrotron Light Sources can induce micro-structures inside the bunches, which intensify the emission of Coherent Synchrotron Radiation (CSR) in the wavelength range comparable to the size of the micro-structures. Dynamic variations of these micro-structures, however, lead to fluctuations in the intensity of the emitted CSR. Such phenomena have been observed at various facilities including ANKA, KIT. Using the in-house developed simulation code, Inovesa, the dynamics of the micro-structures in the longitudinal profiles have been investigated with the help of machine learning techniques. In this contribution we present possible categorization of these micro-structures and their correlations to the CSR intensity.