Covariance in probability theory and statistics is a measure of the joint variability of two random variables.^{[1]}
If greater values of one variable mainly correspond with greater values of the other variable, and the same holds for lesser values (that is, the variables tend to show similar behavior), the covariance is positive.^{[2]} In the opposite case, when greater values of one variable mainly correspond to lesser values of the other (that is, the variables tend to show opposite behavior), the covariance is negative. The sign of the covariance, therefore, shows the tendency in the linear relationship between the variables. The magnitude of the covariance is the geometric mean of the variances that are in common for the two random variables. The correlation coefficient normalizes the covariance by dividing by the geometric mean of the total variances for the two random variables.
A distinction must be made between (1) the covariance of two random variables, which is a population parameter that can be seen as a property of the joint probability distribution, and (2) the sample covariance, which in addition to serving as a descriptor of the sample, also serves as an estimated value of the population parameter.
For two jointly distributed realvalued random variables and with finite second moments, the covariance is defined as the expected value (or mean) of the product of their deviations from their individual expected values:^{[3]}^{[4]}^{: 119 }
where is the expected value of , also known as the mean of . The covariance is also sometimes denoted or , in analogy to variance. By using the linearity property of expectations, this can be simplified to the expected value of their product minus the product of their expected values:
The units of measurement of the covariance are those of times those of . By contrast, correlation coefficients, which depend on the covariance, are a dimensionless measure of linear dependence. (In fact, correlation coefficients can simply be understood as a normalized version of covariance.)
Main article: Complex random variable § Covariance 
The covariance between two complex random variables is defined as^{[4]}^{: 119 }
Notice the complex conjugation of the second factor in the definition.
A related pseudocovariance can also be defined.
If the (real) random variable pair can take on the values for , with equal probabilities , then the covariance can be equivalently written in terms of the means and as
It can also be equivalently expressed, without directly referring to the means, as^{[5]}
More generally, if there are possible realizations of , namely but with possibly unequal probabilities for , then the covariance is
In the case where two discrete random variables and have a joint probability distribution, represented by elements corresponding to the joint probabilities of , the covariance is calculated using a double summation over the indices of the matrix:
Consider 3 independent random variables and two constants .
Suppose that and have the following joint probability mass function,^{[6]} in which the six central cells give the discrete joint probabilities of the six hypothetical realizations :
x  

5  6  7  
y  8  0  0.4  0.1  0.5  
9  0.3  0  0.2  0.5  
0.3  0.4  0.3  1 
can take on three values (5, 6 and 7) while can take on two (8 and 9). Their means are and . Then,
The variance is a special case of the covariance in which the two variables are identical (that is, in which one variable has the same distribution as the other):^{[4]}^{: 121 }
If , , , and are realvalued random variables and are realvalued constants, then the following facts are a consequence of the definition of covariance:
For a sequence of random variables in realvalued, and constants , we have
A useful identity to compute the covariance between two random variables is the Hoeffding's covariance identity:^{[7]}
Main article: Correlation and dependence 
Random variables whose covariance is zero are called uncorrelated.^{[4]}^{: 121 } Similarly, the components of random vectors whose covariance matrix is zero in every entry outside the main diagonal are also called uncorrelated.
If and are independent random variables, then their covariance is zero.^{[4]}^{: 123 }^{[8]} This follows because under independence,
The converse, however, is not generally true. For example, let be uniformly distributed in and let . Clearly, and are not independent, but
In this case, the relationship between and is nonlinear, while correlation and covariance are measures of linear dependence between two random variables. This example shows that if two random variables are uncorrelated, that does not in general imply that they are independent. However, if two variables are jointly normally distributed (but not if they are merely individually normally distributed), uncorrelatedness does imply independence.^{[9]}
and whose covariance is positive are called positively correlated, which implies if then likely . Conversely, and with negative covariance are negatively correlated, and if then likely .
Many of the properties of covariance can be extracted elegantly by observing that it satisfies similar properties to those of an inner product:
In fact these properties imply that the covariance defines an inner product over the quotient vector space obtained by taking the subspace of random variables with finite second moment and identifying any two that differ by a constant. (This identification turns the positive semidefiniteness above into positive definiteness.) That quotient vector space is isomorphic to the subspace of random variables with finite second moment and mean zero; on that subspace, the covariance is exactly the L^{2} inner product of realvalued functions on the sample space.
As a result, for random variables with finite variance, the inequality
Proof: If , then it holds trivially. Otherwise, let random variable
Then we have
Further information: Sample mean and sample covariance 
The sample covariances among variables based on observations of each, drawn from an otherwise unobserved population, are given by the matrix with the entries
which is an estimate of the covariance between variable and variable .
The sample mean and the sample covariance matrix are unbiased estimates of the mean and the covariance matrix of the random vector , a vector whose jth element is one of the random variables. The reason the sample covariance matrix has in the denominator rather than is essentially that the population mean is not known and is replaced by the sample mean . If the population mean is known, the analogous unbiased estimate is given by
Main article: Autocovariance matrix 
For a vector of jointly distributed random variables with finite second moments, its autocovariance matrix (also known as the variance–covariance matrix or simply the covariance matrix) (also denoted by or ) is defined as^{[10]}^{: 335 }
Let be a random vector with covariance matrix Σ, and let A be a matrix that can act on on the left. The covariance matrix of the matrixvector product A X is:
This is a direct result of the linearity of expectation and is useful when applying a linear transformation, such as a whitening transformation, to a vector.
Main article: Crosscovariance matrix 
For real random vectors and , the crosscovariance matrix is equal to^{[10]}^{: 336 }

(Eq.2) 
where is the transpose of the vector (or matrix) .
The th element of this matrix is equal to the covariance between the ith scalar component of and the jth scalar component of . In particular, is the transpose of .
More generally let and , be Hilbert spaces over or with anti linear in the first variable, and let be resp. valued random variables. Then the covariance of and is the sesquilinear form on (anti linear in the first variable) given by
Main article: Algorithms for calculating variance § Covariance 
When , the equation is prone to catastrophic cancellation if and are not computed exactly and thus should be avoided in computer programs when the data has not been centered before.^{[11]} Numerically stable algorithms should be preferred in this case.^{[12]}
The covariance is sometimes called a measure of "linear dependence" between the two random variables. That does not mean the same thing as in the context of linear algebra (see linear dependence). When the covariance is normalized, one obtains the Pearson correlation coefficient, which gives the goodness of the fit for the best possible linear function describing the relation between the variables. In this sense covariance is a linear gauge of dependence.
Covariance is an important measure in biology. Certain sequences of DNA are conserved more than others among species, and thus to study secondary and tertiary structures of proteins, or of RNA structures, sequences are compared in closely related species. If sequence changes are found or no changes at all are found in noncoding RNA (such as microRNA), sequences are found to be necessary for common structural motifs, such as an RNA loop. In genetics, covariance serves a basis for computation of Genetic Relationship Matrix (GRM) (aka kinship matrix), enabling inference on population structure from sample with no known close relatives as well as inference on estimation of heritability of complex traits.
In the theory of evolution and natural selection, the price equation describes how a genetic trait changes in frequency over time. The equation uses a covariance between a trait and fitness, to give a mathematical description of evolution and natural selection. It provides a way to understand the effects that gene transmission and natural selection have on the proportion of genes within each new generation of a population.^{[13]}^{[14]}
Covariances play a key role in financial economics, especially in modern portfolio theory and in the capital asset pricing model. Covariances among various assets' returns are used to determine, under certain assumptions, the relative amounts of different assets that investors should (in a normative analysis) or are predicted to (in a positive analysis) choose to hold in a context of diversification.
The covariance matrix is important in estimating the initial conditions required for running weather forecast models, a procedure known as data assimilation. The 'forecast error covariance matrix' is typically constructed between perturbations around a mean state (either a climatological or ensemble mean). The 'observation error covariance matrix' is constructed to represent the magnitude of combined observational errors (on the diagonal) and the correlated errors between measurements (off the diagonal). This is an example of its widespread application to Kalman filtering and more general state estimation for timevarying systems.
The eddy covariance technique is a key atmospherics measurement technique where the covariance between instantaneous deviation in vertical wind speed from the mean value and instantaneous deviation in gas concentration is the basis for calculating the vertical turbulent fluxes.
The covariance matrix is used to capture the spectral variability of a signal.^{[15]}
The covariance matrix is used in principal component analysis to reduce feature dimensionality in data preprocessing.