The ministry said there was no evidence linking this outbreak with the last one, which began in April and occurred over 2,500 km (1,553 miles) away.
A team of 12 experts from the health ministry will arrive in the zone on Thursday to set up a mobile lab, the ministry said.
This is the central African country’s 10th outbreak of Ebola since 1976, when the virus was discovered near the eponymous river in the north.
Congolese and international health officials deployed an experimental vaccine during the last outbreak, which helped contain its spread after it reached a large river port city..
Ebola, believed to be spread over long distances by bats, causes hemorrhagic fever, vomiting and diarrhea and is spread through direct contact with body fluids.
It often spreads to humans via infected bush meat.