An endoscope system according to the present invention includes: a first illuminating portion that emits first illumination lights having low-spatial-frequency and high-spatial-frequency and changes the intensity distribution of the first illumination lights over time; a second illuminating portion that emits a second illumination light; an imaging unit that images first and second illumination images of an subject respectively illuminated by the first and second illumination lights; and an image-processing portion that processes the first and second illumination images. The imaging unit images four images including images that correspond to the first illumination lights having low-spatial-frequency and high-spatial-frequency and images in which light and dark portions of the first illumination lights are exchanged with each other. The image-processing portion separates three image information for different depths, and processes the second illumination image by the image information other than the image information about the outermost surface side.