I've been using these SEO tools lately for website analyses. SearchMetrics for its visibility features including graphics for clients, Ahrefs for backlinks info, Forecheck from cyberpromote for URL and content analysis, and Moz (formerly SEOMoz) for URL analysis. SEOlytics as well. All of these have free versions. I suggest to those of you looking for solutions, try these out.
Any suggestions on favorite tools not in this list?

SEO profiler is the best tool provide complete analysis for your site.

Google webmaster tool is also good tool. It tell us any issue about our site.