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1.Some of the tools use a lot of bandwidth from the SE’s and they leave a very visible trail for the SE to recognize. I am sure that there have been examples of blocking of IP addresses for use of these tools.
2.I simply don’t trust tools where I can’t verify exactly what they do and who they report to. Luckily for me I don’t have to check up on a huge number of websites, so I do all my checking by hand.
If I were to check a large number of websites, I would consider writing my own tool to do the checking. I’m sure it is quit doable in Perl