I guess it really depends on what you are doing. If your are investigating the relationship between the two variables, the answer would be the covariance. (off-diagonal element in your 2x2 matrix.)
In case you are trying to track the uncertainty of estimates from 2 different systems using their covariance matrices, you could use:
$det(\Sigma)$, or $tr(\Sigma)$, where $\Sigma$ is the covariance matrix.
i.e. the determinant of the covariance matrix is a 1D measure to track uncertainty, and there is some theory about how and why it might make sense. Intuitively, the det tells you by how much you would the cov matrix scale a space if applied as a linear transformation.