The floods that followed heavy rains have affected nearly 200,000 people in Jakarta and neighbouring districts since Saturday, according to the National Disaster Management Agency.
At least five people, including four children, were killed in Jakarta on Saturday, mostly by drowning, the city's governor Anies Baswedan said.
"Water has receded in all flooded areas now," he said.
But in the nearby towns of Bekasi, Karawang and Tangerang, some neighbourhoods were still under water, according the disaster agency.
Parts of Central Java province have been inundated for weeks amid continuing monsoon rain, the agency said.
Floods and landslide are common in Indonesia during the rainy season.
Meanwhile, an earthquake measuring 5.8 on the Richter scale jolted Indonesia's Central Sulawesi province in the central parts of the country early Tuesday, the meteorology and geophysics agency said.
The quake hit at 02: 22 a.m. Jakarta time Tuesday (1922 GMT Monday) with the epicenter at 90 km northeast Buol district and the shallow of 10 km under the sea bed.
The quake did not potentially trigger a tsunami. - dpa
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