Evelyn Badu gave the Black Queens the lead in first-half stoppage time, heading home a cross from Comfort Yeboah.
Mali equalised five minutes after the restart when substitute Kadidiatou Diabaté scored from a free-kick that took a deflection and beat goalkeeper Cynthia Konlan.
Ghana dominated possession and created more chances but were unable to find a winner. The point was enough to secure second place in the group and a last-eight meeting with Malawi.
Mali finish their campaign in third place and are eliminated from the tournament.