In this paper, we reconstructed the positive operator-valued measure (POVM) of a photon-number-resolving detector (PNRD) based on a multi-pixel photon counter (MPPC) by means of quantum detector tomography (QDT) at 791 nm and 523 nm, respectively. MPPC is a kind of spatial-multiplexing PNRD with a silicon avalanche photodiode (Si-APD) array as the photon receiver. Experimentally, the quantum characteristics of MPPC were calibrated at 2 MHz at two different wavelengths. The POVM elements were given by QDT. The fidelity of the reconstructed POVM elements is higher than 99.96%, which testifies that the QDT is reliable to calibrate MPPC at different wavelengths. With QDT and associated Wigner functions, the quantum properties of MPPC can be calibrated more directly and accurately in contrast with those conventional methods of modeling detectors.