At least 156 people have died since Wednesday in Germany's worst flooding in living memory, police said in an update Sunday morning.
In Rhineland-Palatinate state alone, police reported 110 dead and 670 injured.
At least 27 people have also lost their lives in neighbouring Belgium.
Rescue crews in both countries were sifting through rubble to find victims, often in dangerous conditions.
The historic downpours also battered Switzerland, Luxembourg and the Netherlands.
As the waters began to recede in Rhineland-Palatinate and neighbouring North-Rhine Westphalia, concern shifted south to Germany's Upper Bavaria region, where heavy rains inundated basements and swelled rivers and creeks late Saturday.
One person died in Berchtesgadener Land, a spokeswoman for the Bavarian district told AFP.
In Austria, emergency workers in the Salzburg and Tyrol regions were on high alert for flooding. The historic town centre of Hallein, near the German frontier, was under water.
"Heavy rains and storms are unfortunately causing severe damage in several places in Austria," chancellor Sebastian Kurz said on Twitter.
Merkel has called the floods a "tragedy" and pledged support from the federal government for Germany's stricken municipalities.
Speaking alongside US president Joe Biden at the White House on Thursday, Merkel said her "heart goes out to all of those who in this catastrophe lost their loved ones".
The government has said it is working to set up a special aid fund, with the cost of damage expected to reach several billion euros.
'Sorry' for laughing
The disaster has increasingly taken on political overtones in Germany, which heads to the polls on 26 September for a general election that will mark the end of Merkel's 16 years in power.
With experts saying climate change is making extreme weather events like these more likely, candidates vying to succeed the veteran leader have called for more climate action.
Armin Laschet, the premier of hard-hit North-Rhine Westphalia (NRW) state and frontrunner in the race for the chancellery, said efforts to tackle global warming should be "speeded up".
Laschet later apologised on Twitter for the "inappropriate" moment.
Divers, armoured vehicles
The scale of the flood impact was gradually becoming clear in Germany, with damaged buildings being assessed, some of which will have to be demolished, and efforts under way to restore gas, electricity and telephone services.
In some areas, soldiers used armoured vehicles to clear the debris clogging streets.
In NRW, divers were sent in to search submerged homes and vehicles.
Local authorities in NRW and Rhineland-Palatinate said dozens of people remain unaccounted for across both states.
They have stressed, however, that disruption to communication networks made a precise assessment difficult, and the real number of missing could be lower.
Roger Lewentz, interior minister for Rhineland-Palatinate, said more than 670 people were injured.
"I've lived here my whole life, I was born here, and I've never seen anything like it," said Gregor Degen, a baker in the devastated spa town of Bad Neuenahr-Ahrweiler, near Schuld.
Across the border in Belgium, the death toll jumped to 27 with many people still missing.
European Commission president Ursula von der Leyen and prime minister Alexander de Croo visited the flooded areas of Rochefort and Pepinster together on Saturday.
"Europe is with you," von der Leyen tweeted afterwards. "We are with you in mourning and we will be with you in rebuilding."
Belgium has declared Tuesday a day of official mourning.