The endoscope system (1) includes an insertion portion (6), provided in the insertion portion (6), an observation window from the first region to get the first object image (8), the insert (6 ) to provided, emits a first region and at least a portion acquires the second subject image different from the second region observation window (8b), the first illumination light to the first region an illumination window (7), an illumination window for emitting a second illumination light to the second region (7b), a state in which the first illumination light and the second illumination light is emitted at the same time, the first illumination light and as only one of the second illumination light comprises at least a state of emitting, lighting control unit to emit the first illumination section and intermittently illuminating light respectively to a second illumination unit ( and 31), while the first subject image first illumination light acquired in the observation window (8) while emitting the second illumination light is emitted Comprising a second control unit that generates an image based on the subject image obtained by the observation window (8b) and (42), the.内視鏡システム(1)は、挿入部(6)と、挿入部(6)に設けられ、第1の領域から第1の被検体像を取得する観察窓(8)と、挿入部(6)に設けられ、第1の領域とは少なくとも一部が異なる第2の領域から第2の被検体像を取得する観察窓(8b)と、第1の領域に第1の照明光を出射する照明窓(7)と、第2の領域に第2の照明光を出射する照明窓(7b)と、第1の照明光及び第2の照明光が同時に出射する状態と、第1の照明光及び第2の照明光のうちいずれか一方のみが出射する状態とを少なくとも含むように、第1の照明部と第2の照明部とに対しそれぞれ間欠的に照明光を出射させる照明制御部(31)と、第1の照明光が出射している間に観察窓(8)で取得した第1の被検体像と、第2の照明光が出射している間に観察窓(8b)で取得した第2の被検体像とに基づく画像を生成する制御部(42)と、を備える。
