Hello Feliz, and welcome to the forums.
It sounds like a lot of these links are being consider junk by the search engines and dropped from their listing soon after they get found. Google wants mostly to give you credit for "freely given editorial links". They want to see other websites link to you because they think it's is a good site and they want to recommend it to their own visitors.
Links that your website completely controls only have limited value, and in some cases, none at all. These links can get indexed one day, but then after those links get evaluated they can be dropped from the index.
In fact, if you've been doing this kind of automated submission for a long time, you may have already created ranking problems by building links in questionable link networks. See Google's Guidelnes about
Link Schemes [google.com] for details.
This situation is not unique to Google. Getting strong backlinks for any of the major search engines is more like conventional public relations and marketing. You need to find ways to let another quality site know about your site. Then, if they feel it is valuable for THEIR visitors, they will give you a link.
So the key is your own content needs to offer value that others recognize. This gives you top quality links, links that have staying power. Automated process such as you describe have only limited value. At a certain point, you also need these top quality links.
We have a
Link Development forum [webmasterworld.com] here. Lots of good threads, both current and in
the Library [webmasterworld.com]. I'd suggest some study there and you may have a new and improved understanding.