x chromosone and y chromosone
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The question is not altogether clear, but in a question such as What is x% of y? (where x and y are numbers), y is the original value. Incidentally, since x% of y is the same as y% of x, it does not matter all that much.
If you mean what is the name for what x, y, and z when used in math, then the word is variable.
The independent data goes on the x-axis. The x-axis is the abscissa and the vertical y-axis is the ordinate.