More than four million people in central and southern provinces were affected by Typhoon Rai, including 570,906 who were displaced, the agency said on Monday.
Rai also destroyed and damaged over 22 billion pesos ($A607 million) worth of private and public infrastructure as well as agricultural crops, it added.
Rai slammed into the country's east coast on December 16, flattening houses, damaging buildings and public infrastructure, uprooting trees, and causing floods and landslides.
Power and communication lines were also knocked out in the most affected areas, and many areas were expected to only get electricity in January.
One of the hard-hit areas was the central province of Bohol, which reported 109 deaths as of Monday. The nearby province of Cebu reported at least 96 deaths.
Emergency teams and humanitarian workers have likened the damage brought about by Rai to Haiyan, the strongest typhoon to ever hit the Philippines.
Haiyan killed 6300 and displaced more than four million people in November 2013.
The Philippine archipelago is hit by an average of 20 tropical cyclones every year.
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