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Forgive me if there is a similar thread somewhere in this forum, point me there, thank you.
The software that I use for building my website automatically add a text link (pointed to the software provider website), this same link appeared on every page, so there must be 100's of this link in my site now, will this hurting my PR or even banned from SE?
If anything, the algorithm probably begins to heavily discount the second and third and fourth link until you get almost no additional PR value from getting, say, your 1,000th link from a site.
On the other hand, if it is a link to a site of relevance, it coculd have a positive effect. I don't know if that makes sense. Hopefully someone more knowledgeable will clarify if I am correct.
Yep, I agree with you SEOMike, pr0 won't help them much, but most of my pages with such link are PR4, some PR3 and few PR5, will these figures change your mind?
So these links seems not really do much of damage then
From my observations site wide links (at least over 100 pages) will almost certainly trigger the sandbox/quarantine penalty. However if they are going to exist for a long period of time, they will eventually emerge.