Crowds celebrated in the streets of the capital Antananarivo after an elite army unit said it had seized power from the president.
Ivory Coast and Senegal become the final two African sides to secure automatic qualification for the 2026 World Cup.
The military promises elections within two years, but the President Rajoelina insists he is still in charge.
Cape Verdeans took to the streets to celebrate qualifying for the World Cup, with many hailing it the best day since gaining independence in 1975.
The incident raises questions about security at one of Kenya's most heavily guarded places.
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