How to Manually Upload Files via FTP

You can actually just delete the WordPress install folder or move it to another directory, then you have the folder to yourself, upload your coded site and you should be good. You could rename the wp-config.php file to wp-configX.php and also delete the .htaccess file if it is there and then have your site work in that folder as well.

Check if the WordPress install is in a different folder besides the root html folder. If so, and www.example.com is still sending you the the WP install, then check for an .htaccess in the root web folder as well. usually this is something like ( html | httpdocs | www | public_html )