The boat was coming from Tanzania and was headed for the DRC town of Moba.
Jean Rigobert Tshimanga, the head of the Tanganyika district, said: "For the present, it is impossible to give a toll. There could have been 30 to 60 people on board."
Seventeen people drowned when an overloaded boat hit a rock in Lake Tanganyika on January 25.
Dozens were missing but about a 100 people were rescued.