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In this contribution, an algorithm for evaluating the capacity-achieving input covariance matrices for frequency selective Rayleigh MIMO channels is proposed. In contrast with the flat fading Rayleigh cases, no closed-form expressions for the eigenvectors of the optimum input covariance matrix are available. Classically, both the eigenvectors and eigenvalues are computed numerically and the corresponding optimization algorithms remain computationally very demanding. In this paper, it is proposed to optimize (w.r.t. the input covariance matrix) a large system approximation of the average mutual information derived by Moustakas and Simon. An algorithm based on an iterative water filling scheme is proposed, and its convergence is studied. Numerical simulation results show that, even for a moderate number of transmit and receive antennas, the new approach provides the same results as direct maximization approaches of the average mutual information.