NAGANO, JAPAN - Rescue workers waded through muddy, waist-high waters on Monday searching for missing people after one of the worst typhoons to hit Japan in recent history, while rain fell again in some affected areas, stoking fears of further flooding.

Prime Minister Shinzo Abe said vast areas had been struck by the storm and called for urgent support to the affected.

At least 43 people were killed in the typhoon that left vast sections of towns in central and eastern Japan under water, with another 16 missing and 202 injured, public broadcaster NHK said.

Tens of thousands of rescue workers and a fleet of helicopters have fanned out in the affected areas, officials said.

"There still are many residents who have yet to be accounted for. Our people in uniform are working day and night in search and rescue operations," Abe told an emergency meeting of ministers.

"Damage has been made in an extremely wide range of areas, and more than 30,000 people are still being forced to remain in the state of evacuation. It is our urgent task to offer meticulous support to those who have been affected."

Typhoon Hagibis, which means "speed" in the Philippine language Tagalog, made landfall on Japan's main island of Honshu on Saturday and headed out to sea early on Sunday.

Groups of rescuers wearing goggles and snorkels searched for survivors while making their way in waist-high water in Nagano, central Japan, where the Chikuma River inundated swaths of land.

A middle-aged man in Nagano, asked about the situation around his house, told NHK: "It's just like a lake."

Yoshinobu Tsuchiya, 69, returned on Monday morning to his home in Nagano City, near where the Chikuma Rover had breached its banks, to find that his first floor had been flooded and that the garden he tended had turned to brown mud.

"So this is what it's come to," Tsuchiya sighed to the Nikkei newspaper. "I can't even imagine when we'll finish cleaning up. I'm sick of this flood."

A neighbor in his 60s told the newspaper, "This is just like a tsunami. This is hopeless." -Reuters