Whats the best Software for link indexing?

The advice above is very poor. Google and the other SEs could care less about HOW your pages get into their index. Besides, how can you index them 'manually'? Well, you could list each of your hundreds of pages in the Google index form. That would take you days of non-stop work - and Google itself says that it takes "weeks" to be indexed that way. The time that you spend doing such a foolish task can be much better spent building more pages and getting links, etc.

There is a very easy way to be found. All you need is some RSS software. I use RSS Submit and I can list dozens of URLs and click a button and go about my other work. The software will go out on the Net and list each page in multiple feed directories. My pages will be in the directories in a couple of minutes and the SEs are all over those directories and they will definitely find any pages listed there. RSS Submit is fairly expensive but there are lots of RSS software programs out there - some are sold on the Warrior forum. I can't recommend any of them because I only use RSS Submit but I'm sure there are good ones.

IMPORTANT: some software or websites will make you fill out a ton of information - like Title, Description, Keywords, etc. - on each page and some of them do only one page at a time. What you want for hundreds of pages is software like mine: I just list the URL and I can do dozens at one time. That's a lot faster.

well I use backlinkbooster.com and it works well for me. I heard lots of positive things for Sean's backlink booster as well but have yet to try it.

I am working since a few days with this : http://budurl.com/skadoogle a super tool and free in it's basic version = it's really worthwhile !