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The agency has since downgraded the heavy rain alert, and kept landslide and flooding warnings in place.

In Suzu, one person died and another was missing after being swept in floodwaters. Another went missing in the nearby town of Noto, according to the prefecture.

In Wajima, rescue workers were searching for four people missing following a landslide at a construction site. They were among 60 construction workers repairing a tunnel damaged by January's quake.

The FDMA said another person was missing due to floods at a different location in the city.

NHK footage at a coastal area of Wajima showed a wooden house torn and tilted after it was apparently hit by a landslide. No injuries were reported from the site.

In Noto town, two people were seriously injured by a landslide while visiting their quake-damaged home.

At least 16 rivers in Ishikawa breached their banks as of Saturday afternoon, according to the Land and Infrastructure Ministry. Residents were urged to use maximum caution against possible mudslides and building damage.

By late afternoon Saturday, about 1,350 residents were taking shelter at designated community centers, school gymnasiums and other town facilities, authorities said.

About 50 centimeters (20 inches) of rain has fallen in the region over the last three days, due to the rainbands that cause torrential rain above the Hokuriku region, JMA said.

“Heavy rain is hitting the region that had been badly damaged by the Noto earthquake, and I believe many people are feeling very uneasy," said Chief Cabinet Secretary Yoshimasa Hayashi.

Hayashi said the government “puts people's lives first� and its priority was search and rescue operations. He also called on the residents to pay close attention to the latest weather and evacuation advisories and take precautions early, adding that the Self Defense Force troops have been dispatched to Ishikawa to join rescue efforts.

A resident in Wajima told NHK that he has just finished cleaning his house from the quake damage and it was depressing to now see it flooded by muddy water.

A number of roads flooded by muddy water were also blocked. Hokuriku Electric Power Co. said more than 5,000 homes were still without power Sunday. Traffic lights were out in the affected areas. Many homes were also without water supply.

Heavy rain also fell in nearby northern prefectures of Niigata and Yamagata, threatening flooding and other damages and suspending train operations, including the Yamagata Shinkansen bullet trains, officials said.

A 7.6 magnitude earthquake struck the region on Jan. 1, killing more than 370 people and damaging roads and other key infrastructure. Its aftermath still affects the local industry, economy and daily lives.