This work gives the description of an experimental method for the calculation of the initial amplitude of plasma bubble seed perturbation in the bottomside F layer from ionograms. The observations show that after sunset the ionograms exhibit irregularities in the base of the F trace. In the context of the plasma depletion in the bottomside F-layer, the irregularities in ionograms can be seen like isodensity contour in evolution (in space and time). The initial amplitudes, calculated using the methodology, vary between 0.03 and 0.08. The ionograms analyzed were obtained from the station of Cachimbo (9.5°S, 54.8°W) during COPEX campaign in Brazil. The methodology can be useful for application in numerical simulation of plasma bubbles in which actual ionospheric parameters are used.