Papua's police chief has denied bullets were removed from the body of murdered Australian Drew Grant before an autopsy was performed in Jakarta.

Mr Grant, 29, was shot in Papua on a road to the Freeport Mine on Saturday.

Yesterday Dr Abdul Mun'im Idries said it was possible bullets were removed before an autopsy 16 hours after the Australian engineer was murdered.

Papua's police chief, Bagus Ekodanto, has rejected this suggestion.

"No such thing. All was done according to procedure. Nothing was changed, so this statement should clear those rumours," he said.

National police spokesman Nanan Soekarna says only Mr Grant's outer body was examined in Papua.

Yesterday Dr Mun'im told the ABC Mr Grant was killed by four bullets and not five, and all were fired from a distance and from above, except for one which possibly ricocheted from below.

The forensic specialist said he found no intact bullets or exit wounds, only fragmentation.

He could not say with certainty whether the bullets came from military-grade weapons, but he said all of the fragments were from bullets with metal casings, which would be consistent with bullets of a military grade, but also other bullets.

Dr Mun'im said there could have been more than one shooter, as Mr Grant had been shot from two different directions.

Andreas Harsono of Human Rights Watch, who spent two-and-a-half years investigating the ambush killings of two American teachers on the Freeport road in 2002, says without intact bullets it would be impossible to tell precisely which weapon was used.

Meanwhile, a local rebel leader in Papua says his forces were not responsible for shooting Mr Grant.

The death toll from the bloody weekend in the region is now three, after Indonesian police said a policeman who fled an ambush had been found dead.

The local commander of the Free Papua Movement, Kelly Kwalik, has denied any role in the attack which killed Mr Grant.