PHOENIX — Two towns run by the polygamist sect controlled by Warren Jeffs routinely violated the civil rights of nonbelievers by discriminating against them in housing permits, policing and utilities hookups, a Federal District Court jury here found Monday.

Prosecutors had argued that the two towns — Colorado City, Ariz., and neighboring Hildale, Utah — effectively did the bidding of the Fundamentalist Church of Jesus Christ of Latter Day Saints, the largest polygamist sect in the United States. They asserted that the towns denied basic services to outsiders, essentially creating a two-tiered system.

Federal prosecutors did not specify the remedies they would seek, which could include disbanding the towns’ police force and placing the towns’ administration into the hands of county or state officials.

The trial was one of two actions the authorities have taken recently against the sect. During the final days of the trial, federal agents raided businesses in Hildale and arrested 11 sect leaders and their associates, accusing them of siphoning millions of dollars in food-stamp transactions to bank accounts managed by the sect. Among those arrested was Lyle Jeffs, the brother and surrogate for Warren Jeffs, who is serving a life sentence for the sexual abuse of under-age girls he claimed as his wives.