Fighting between government forces and rebels erupted on Monday in the town of Pajok in the country's southern Equatoria region, a previously peaceful part of the country that has seen a surge in conflict in recent months.
According to a statement from the UNHCR over 6,000 people have fled into the northern Ugandan district of Lamwo since the attack while many others were hiding in the bush trying to find their way to safety in Uganda as main roads were blocked by armed groups.
"Refugees told the UNHCR team on the ground in Lamwo terrifying stories of violence and abuse against civilians. Many have witnessed their loved ones shot dead or slaughtered like animals," UNHCR spokesman Rocco Nuri told AFP.
"Families fled in all directions. Those unable to run were reportedly shot dead, including the elderly and people with disabilities."
A local pastor who fled Parjok on Wednesday, and asked not to be named, told AFP soldiers had entered the town in tanks "and suddenly we saw shooting and we just had to run."
The UN peacekeeping mission UNMISS said in a statement on Wednesday that they had twice been prevented from accessing Pajok.
"The mission has received reports of fighting between SPLA (government) troops and the opposition there and is trying to follow-up on reports of civilians killed in the area," the statement added.
UNMISS urged the government to immediately allow it access "so it can fully implement its mandate, including to protect civilians and report on human rights violations."
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