web.conf file include the information about how to connect to other server eg, database server, smtp server ......
web.sitemap has the indicator whether a page need to be access by passing the ssl channel. Normally for the web site which use virtual host can not set up use ssl certificate by IIS manager. They will set a flag in the web.sitemap file to indicate IIS which file need access by using ssl certificate. However if the file mentioned in the web.sitemap file using ssl certificate would not work if it has been seted require ssl certificate in the IIS manager too.
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