Chilean President Sebastian Pinera said on Thursday that police may have broken protocols in responding to a month of protests, and prosecutors will investigate whether they violated human rights.
His comments came after Amnesty International released a report denouncing a "deliberate policy" of wounding protesters during the unrest that broke out last month and has so far resulted in 22 deaths.
"If those protocols were not met, and I think it is possible that in some cases they were not met, that will be investigated by the prosecutor's office and will be sanctioned by the courts of justice," Pinera said in a meeting with foreign media.
Furious Chileans have been protesting against social and economic inequality, and an entrenched political elite, among other issues.
The National Institute of Human Rights has reported about 2,000 injuries, while health organizations claim that more than 280 people have suffered eye damage from shotgun pellets.
No police officers have been killed in the demonstrations but the human rights institute said some 1,600 officers have been wounded.
The prosecutor's office reported that from October 31, around 1,089 criminal investigations have been opened into allegations of police violence, 24 for alleged instances of torture and nine for cases of alleged sexual abuse or rape.
Pinera has previously condemned what he said were abuses committed by police, and promised "there will be no impunity" for both protesters and security forces.
Chile's police had on Tuesday announced they would suspend the use of birdshot against protesters, following an outcry over the more than 200 demonstrators who have suffered eye injuries.
The Amnesty report released Thursday said Chilean security forces are "carrying out widespread attacks using unnecessary and excessive force with the intention of injuring and punishing protesters."
"The intention of the Chilean security forces is clear: to injure demonstrators in order to discourage protest, even to the extent of using torture and sexual violence against protesters," Amnesty's Americas director Erika Guevara-Rosas said in a statement.
The report also found 23 instances of human rights violations, which it said were "not isolated or sporadic incidents, but reveal a consistent pattern of violations throughout the country, indicating the modus operandi of the security forces."
The Chilean government "categorically rejects" the Amnesty report, Chile's human rights under-secretary Lorena Recabarren said in a press conference, while the Chilean police said that it had no "intention to harm" protesters.
Chile's military, which was deployed on the streets for the first nine days of the unrest after Pinera declared a state of emergency, also hit back at the Amnesty report.
"There was no armed forces policy of directing widespread or systematic attacks against the civilian population," the army, navy and air force said in a joint statement.
Demonstrations continued on Thursday, with protesters looting and burning stores in a shopping center in the capital Santiago amid a demonstration against police abuses.
In Antofagasta in northern Chile, local television broadcast footage of a driver running down a group of people who were protesting, then fleeing the scene.
Police told AFP that the attack injured five people. The driver turned himself in hours later and was placed under arrest.
Lootings and riots were also reported in the port city of Valparaiso and in Concepcion, southern Chile's largest city.