A method of range and depth estimation was studied using a single hydrophone based on the dispersive characteristic and time-frequency analysis for low frequency underwater acoustic pulse signals in shallow water environment. First, the signal received on a single hydrophone can be decomposed into a series of modes within the frame work of normal mode theory, and then the dispersive characteristic of the propagating modes can be analyzed using the time-frequency analysis. In order to improve the time-frequency resolution, the use of the time-frequency distribution with adaptive radial-Gaussian kernel extracts the arrival time difference of propagating modes in dispersion curve, which can be used to estimate source range. Mode energy can be extracted using binary time-frequency mask filtering based on multi-mode joint matching processing; and the source depth can be estimated by comparing the differences of the mode energy of the real data and simulated replica data, yielding a contrast function. Simulation results from a shallow-water Pekeris waveguide show that the time-frequency distribution with adaptive radial-Gaussian kernel represents well the dispersion characteristics of the underwater acoustic pulse signals, provides higher time-frequency resolution and overcomes the problem of the inherent limit for the time resolution and frequency resolution in the traditional short-time Fourier transform, so that the modes can be separated and identified more easily in the time-frequency plane. From the result of the range estimation, the different mode combinations have different results of the range estimation. The range estimation result can be obtained accurately by using the mode with high energy in the time-frequency plane. The relative error in range estimation is less than 2% by using the mode with high energy. In terms of the depth estimation, the more the number of joint matching mode, the more sharp peak and low fake peaks the contrast function has, so that the depth estimation is further improved by incorporating more modes. This research has great significance for studying the extraction and separation of low frequency underwater acoustic pulse signals.