An example of a game system includes an input apparatus, at least a part of which elastically deforms by applying a force to the input apparatus. During the execution of a rhythm game, music is reproduced, and at each of a plurality of timings associated with the music, a user input is evaluated. If the input apparatus deforms at a predetermined timing, a user input at the predetermined timing is evaluated in favor of a user regardless of whether or not the input apparatus deforms from a time before the predetermined timing.