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When copying some selected points listed in the Attribute Table from QGis to Excel the order seems to get lost. Is there a way to keep the selected points in the order they were originally selected?

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I don't think it's possible via the interface, perhaps through python scripting in which case hopefully others can advise you. But it seems QGIS copies the attribute features in ascending order of feature ID, regardless of how the user sorts/filters it.

I tested this on QGIS 2.2.0 and 2.6.1, results for both are the same as yours.

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