I just want to know can we get the Search Queries details from Google Webmaster tools API?
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Not via the API, but you can use the scripts referred to on http://googlewebmastercentral.blogspot.com/2011/12/download-search-queries-data-using.html to get the same data.

John Mueller
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Note that this script uses ClientLogin for authentication which will be shut down on April 20, 2015. – nwellnhof Mar 13 '15 at 17:22