There could be a number of reasons for this error from moving files around on your home computer to a disconnect within the Fusion software.
You can use any FTP software and upload the files that are located in your local publish folder to your web host. Most users do this as it is the simplest.
You can run your site project through the 3 step clean up process. Most do NOT do this as it can cause issues to those other than experts in the use of the Fusion software.
If you want to use a 3rd party FTP program you can go through the tutorial I have written for my hosting customers, substituting your godaddy info for the info in my tutorial that will upload to my servers.
http://www.gotfusion.com/tutorials/tut.cfm?itemID=4066
I am sure godaddy will have a similar tutorial you can go through should using the one I have made for my website hosting customers be confusing to you to use with your godaddy info.
If you feel you are an expert in the Fusion software and don't want to use FTP software, let me know and I will post the multiple tutorials that will address the internal disconnect. IF that does not clear it up and you still do not want to use FTP software post back and we'll go deeper into your software and home computer setup