(Adds more clashes, end of fighting, U.N. quotes)

By Joe Bavier

GOMA, Congo, Oct 20 (Reuters) - Thousands of civilians fled fighting between Tutsi-dominated rebels, troops and pro-government militia in eastern Democratic Republic of Congo on Saturday, the U.N. peacekeeping mission said.

Clashes began before dawn in Bunagana on the Ugandan border as Mai Mai militia tried to seize a key supply route from rebels loyal to renegade Tutsi General Laurent Nkunda.

Government troops fought Nkunda's forces in nearby Bukima, to the west of Bunagana, according to officials at the U.N. peacekeeping mission in Congo (MONUC).

"It was fairly serious. The fighting started early this morning and ended late this afternoon," said Major P.K. Tiwari, MONUC military spokesman in North Kivu, adding that it was not clear who attacked first.

Villagers from Bunagana and the nearby settlements of Jomba, Runyoni and Bweza poured into Rutshuru, the local government-held administrative seat, about 8 a.m. (0600 GMT).

"What I saw was horrendous. It was raining. They didn't know where to go. Three women gave birth while they were fleeing," said Sylvie Van Den Wildenberg, MONUC spokeswoman in North Kivu.

"The humanitarian consequences of whatever is happening there are very serious."

About 370,000 people have already fled fighting between government soldiers, Nkunda loyalists, local militias and Rwandan Hutu rebels since the beginning of the year.

Congo's army has been battling Nkunda since August when his men abandoned a January peace deal and pulled out of government brigades. Nkunda led about 4,000 soldiers into the bush in 2004, saying he would protect Congo's Tutsi minority.

He accuses the government of supporting the Democratic Forces for the Liberation of Rwanda (FDLR), a Rwandan rebel group including ex-Hutu militia and Rwandan soldiers responsible for that country's 1994 genocide. This is denied by Congo.

Nkunda's military spokesman Major Seraphin Mirindi said the rebels were attacked on Saturday by FDLR fighters.

"They attacked us. Now our clean-up operations are under way. We're pushing them back, and they are losing many men," he told Reuters by telephone.

The head of the local Mai-Mai militia, which has carried out operations with the FDLR against Nkunda, said his forces near Bunagana had come under attack about 3 a.m. (0100 GMT).

The Mai Mai leader, General Kasereka Kabamba, said his fighters had taken control of Bunagana, but U.N. officials denied this.

After historic elections last year, President Joseph Kabila promised to pacify Congo's troubled east. In a press conference in North Kivu's provincial capital Goma on Wednesday, he said the army had received the green light to begin preparing military operations to disarm Nkunda's fighters.

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