The Pakistan city of Multan and swathes of Punjab province are under threat from flooding from the Chenab river.
The government has placed the area on high alert and initiated relief and rescue operations and evacuated those from low-lying land.
In Indian administered Kashmir the waters are on the wane, but thousands remain stranded.
Most of the rain fell at the end of the monsoon season in the Himalayan region of Kashmir.
The waters then fed into the Chenab river causing widespread flooding of vital farm land.