A lot of the backlink checkers use yahoo. Try google webmaster tools.
Yahoo site explorer works perfectly and its show accurate results as well.
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I use backlinkwatch.com to check the back links!
Yahoo site explorer is good. Google also a good choice. if you are more serious then i suggest you check out some premium tools like those from shoemoney or seobook
yahoo explorer works most of the time
Almost all of the backlink checking tools are front-end to Yahoo Site Explorer. I worry that the recent deal between Microsoft and Yahoo will result in the death of Yahoo Site Explorer.
I've been using AdvancedLinkManager lately. It's sort of a backlink checker on steroids.
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I use two tools.
1. Backlinks Checker Tool - Backlink Watch
2. Domain-Pop.com - Backlink Checker, Back Link Check, Popularity
The first one is better, IMO