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Witnesses report clashes in the centre and north, in what has been described as the largest jihadist attack in years.
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The two Americans who reportedly worked for the CIA died in a car crash after a Mexican-led operation to destroy a drug lab.
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Local elections have been held in the occupied West Bank and in one Gazan city, though Hamas and other groups are not taking part.
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More than 500 political prisoners are thought to still be in jail, despite the releases since the amnesty law was brought in.
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The outgoing prime minister will not take up his seat after leading his party back into opposition.