Duplication of Website when uploading to FTP

I am in desperation mode. The FTP is showing one of the websites in duplicate in the Local Site screen. I have tried countless to eliminate the second one, but to no avail. It is not listed in the Website Documents folder. This has resulted in I am not able to upload pages that have been updated resulting in one of the pages on the website is badly skewed.
I have sought help from the ISP Domain Host and he said I need to check the codes. I plead absolute ignorance as to where do I dig down deep into the FTP [FileZilla] to find out a code that I could access to delete the duplication of the same site.

I am replying to my own message because the one above was sent accidentally before I could add more information. I wanted to include URL for the website which is http://lanark-baldersonpastoralcharge.ca
I also want to include a screen shot of my Website folder. The troublesome site #4 is what duplicates in the FTP program.
I hope this issue can be resolved as it is a very well visited site. I am diligent about keeping it updated. The entire website had to be uploaded because Apple removed the Arial MT and Arial Bold MT. All my pages were skewed as a result. After hours of getting them reinstated with Arial Round Bold MT, iWeb published everything beautifully, but I cannot upload them because duplication of the site has occurred.
HELP!

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    I am replying to my own message because the one above was sent accidentally before I could add more information. I wanted to include URL for the website which is http://lanark-baldersonpastoralcharge.ca
    I also want to include a screen shot of my Website folder. The troublesome site #4 is what duplicates in the FTP program.
    I hope this issue can be resolved as it is a very well visited site. I am diligent about keeping it updated. The entire website had to be uploaded because Apple removed the Arial MT and Arial Bold MT. All my pages were skewed as a result. After hours of getting them reinstated with Arial Round Bold MT, iWeb published everything beautifully, but I cannot upload them because duplication of the site has occurred.
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