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Consumer Reports’ annual auto reliability report came out this week, and Detroit-based Ford dropped in the rankings, while Japan-based Toyota brands claimed the top three spots. Meanwhile, General Motors’ brands also moved up the list.

The Toyota Scion was the top most reliable car, according to Consumer Reports, followed by the Toyota brand and Lexus. Mazda and Subaru rounded out the top five. Ford’s namesake brand dropped to the second worst reliable car, second only to Jaguar. Ford’s Lincoln brand was the next worst on the list.

In an interview with Bloomberg/BusinessWeek, Jake Fisher, director of automotive testing for Consumer Reports, said a lot of Ford’s problems were based on new technologies in the cars that just didn’t meet expectations, such as MyFord Touch and MyLincoln Touch Audio.

“They’re taking that system and putting it in more and more vehicles, so there’s really not an indication that even next year things are going to get better,” he also told Bloomberg/BusinessWeek. Additionally, some of the newer lines — the Explorer, Fiesta, and Focus — “came out of the gate with more problems than normal,” according to Consumer Reports.

This drop is new for Ford, which two years ago had 90 percent of its brands perform above average in terms of predicted reliability. Now, Consumer Reports said, 60 percent of its brands are below average.

This year, General Motors has the highest-ranking domestic brand, Cadillac, and its other brands—Buick, Chevrolet, and GMC—also rose. Jeep, which was the top domestic brand in 2011, dropped seven spots.

Consumer Reports noted this: “As is the case every year, there is much movement across the industry, underscoring the importance of not making assumptions simply based on brand reputation. Within a brand’s portfolio, there are models that are better than others.”

What auto brands do you trust? Do you agree with the rankings?

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