During feature creation whenever you have sketch entities that cross over each other their is an option to pick contours within the bounded sketch. When you select contours to create the feature the feature sketch appears that way.
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(In reference to David Beckham) "He can't kick with his left foot, he can't tackle, he can't head the ball and he doesn't score many goals. Apart from that, he'
If you select the sketch in the graphic area of your screen, it's easy to invoke the contour selection without realizing it. I see my students do it all the time.
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Edit the feature, scroll down to the Contour Sketch input window, and deselect the sketch there. Select the window at the very top, and reselect the sketch, and extrude, etc...