Body remains of around 100 people recovered from the sewer system on La Modelo in Bogota, one of Colombia's largest and most overpopulated prisons, reported CNN.
Authorities are focusing on investigation of disappearance and dismemberment of at least 100 people.
Similar incident might have also occurred in other prisons such as Popayan, Bucaramanga and Barranquilla between 1999 and 2001 and possibly later.
"Colombian attorney general's office has been investigating what happened at La Modelo for months," Caterina Heyck Puyana, a special prosecutor in charge of the case was quoted as saying.
"Towards the end of last year we began investigating the possible disappearance and dismemberment of an undetermined number of people at La Modelo prison in Bogota," Heyck said.
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"The victims were inmates, visitors and people who had nothing to do with the prison. Their remains were thrown into the drain pipes of the sewer system," Heyck added.
Colombian jails are among the most overcrowded and is known for its violence in Latin America.