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Then I do a "MyCompany.com" search and not one of my pages is listed.
After I got my heart to start beating again, I did a key word search and there I am, #1.
So I'm in Google, but not really. What gives? Anyone know?
If I understand you correctly you just aren't optimized for your own company name. Which is not necc. a bad thing.
Example: you have your company name as a graphic on the pages, and the incoming links don't have the company name in the anchor text either.
1- Key in www.mycompany.com in a Google search..
2- Get the "Find web pages that link to "mycompany.com"..
3- This is the trouble...
I use to see not only the pages that linked to my site, but all of the pages FOR/OF my site. My web pages are not present at all when you go to "Find web pages that link to "mycompany.com"... does that make sense?
What's worse... the web sites that linked to www.mycompany.com appear to have been reduced by about 2/3. When I check the sites that I know were linked to me, I find that they are still linked to me, but Google has only indexed about a third of them. They ALL were indexed at one time.
What's going on? I'm #1, page one on my key words, but for how long if "www.mycompany.com" pages are not in the index?
That's not a problem at all.
What you are seeing is the pages Google shows as having links to your homepage. That includes pages from other domains as well as pages from within your own domain.
BUT: Google only shows pages in that link search which have a resonably high PR, like PR4 or above.
That does not mean, Google doesn't count the other, now missing links. It just doesn't show them.
To see how many pages of your site are indexed, you could use: