Please use the Google Analytics code dialog specifically intended for this purpose -
ShopFactory Central page
1. Open your shop in ShopFactory software
2. At the left tree menu, click ShopFactory Central page -> click the "Search engines (SEO)" button
3. Locate the "Google Analytics Code" box and then paste your code as shown in screenshot:
(Note: Do not enter your keywords in the Google Analytics box - the search words are added in the product wizard and page properties dialog - SEO details section)
v11 ShopFactory Central page:
v9/10 ShopFactory Central page: