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We have a site running on a main domain http://lightandspace.co.uk (60 indexed pages), and a blog running under the subdomain http://blog.lightandspace.co.uk (250 indexed pages)

I currently have them running under two Analytics profiles and two Webmaster profiles. Just so traffic figures don't get muddled, is this bad practice from an SEO point of view?

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SEO is about making your site better for search engines. I don't see how you use analytics will directly affect that. –  paulmorriss Apr 26 '12 at 12:10
    
My thought was that by having the blog split into a seperate webmaster profile the main site would not be getting the befit of google seeing regularly added content –  sam Apr 26 '12 at 15:21
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Google does not use the fact that you have analytics when updating its index. –  paulmorriss Apr 26 '12 at 15:35
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That's perfectly fine, your main domain and blog each have their own sitemaps and are uniquely verified domains so two domains in Webmaster Tools is fine and same with Analytics.

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