The widely used measures AC and CC of gene prediction accuracy have beenanalyzed. First, statistical frameworks of AC and CC have been presented and theirdifference in essence have been explained. Then it is proved that |AC|≥|CC| holdsexcept some particular cases and the conditions when AC = CC holds have beenpointed out. Furthermore, It has been analyzed what in?uences the difference betweenAC and CC and concluded that both the prediction accuracy and the difference be-tween FP and FN result in the difference between AC and CC.
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