So Call My Name is #1 on both the I-Tunes single and album charts? But if all the sales count solely towards the singles chart why the hell have I-Tunes got her at album #1 aswell?

It counts completely towards the single release and simply any release with more than one track is on itunes' album chart EPs and LPs

Because individual song downloads have got it to #1 on the song chart and EP downloads have got it to #1 on the album charts. Sales for both individual and EP downloads will be combined for the official singles chart.

The sales from the EP will be combined with the sales for just the single.