The findings are the latest in a series of increasingly grave scenarios presented by Tepco about the state of the reactors. The company initially insisted that there was no breach at any of the three most-damaged reactors; it later said that there might have been a breach, but that most of the nuclear fuel had remained within the containment vessels.

“This is still an overly optimistic simulation,” said Hiroaki Koide, an assistant professor of physics at the Kyoto University Research Reactor Institute, who has been a vocal critic of Tepco’s lack of disclosure of details of the disaster. Tepco would very much like to say that the outermost containment is not completely compromised and that the meltdown stopped before the outer steel barrier, he said, “but even by their own simulation, it’s very borderline.”

“I have always argued that the containment is broken, and that there is the danger of a wider radiation leak,” Mr. Koide said. “In reality, it’s impossible to look inside the reactor, and most measurement instruments have been knocked out. So nobody really knows how bad it is.”

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Still, a spokesman for Tepco, Junichi Matsumoto, said Wednesday that the nuclear fuel was no longer eating into the concrete, and that the new simulation would not affect efforts to bring the reactors to a stable state known as a “cold shutdown” by the end of the year.

“The containment vessel as a whole is being cooled, so there is no change to our outlook,” Mr. Matsumoto said at a news conference.

The nuclear accident at the Fukushima Daiichi plant, the worst since Chernobyl, triggered fuel meltdowns at three of its six reactors and a huge radiation leak that has displaced as many as 100,000 people. The Japanese government has said some areas around the plant will be uninhabitable for decades.

Tepco based the simulation on projections of decay heat released by the nuclear fuel and other estimates. The results suggest that the uranium fuel rods at the No. 1 reactor were most badly damaged, Mr. Matsumoto said, because it lost cooling water before the other two reactors did. The fuel rods were exposed for several hours before fire trucks could pump in emergency seawater.

Because the simulation suggests that heat released as a result of radioactive decay “far overwhelmed” the effect of the cooling water, he said, and because temperatures in the inner pressure vessel that originally housed the fuel are thought to have dropped quickly, Tepco now assumes that “100 percent of the fuel at Unit 1 has slumped” into the outer primary containment vessel.

In addition, the simulation suggests that the fuel bored more than two feet into the concrete, Mr. Matsumoto said.

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At Units 2 and 3, the initial cooling efforts were more successful, he said, and a smaller amount of fuel is thought to have escaped the pressure vessels and into the primary containment vessels.