Markov chain samplers designed to sample from multi-variable distributions often undesirably get stuck in specific regions of their state space. This causes such samplers to approximately sample from a metastable distribution which is usually quite different from the desired, stationary distribution of the chain. We show that single-variable conditionals of metastable distributions of reversible Markov chain samplers that satisfy a strong metastability condition are on average very close to those of the true distribution. This holds even when the metastable distribution is far away from the true model in terms of global metrics like Kullback-Leibler divergence or total variation distance. This property allows us to learn the true model using a conditional likelihood based estimator, even when the samples come from a metastable distribution concentrated in a small region of the state space. Explicit examples of such metastable states can be constructed from regions that effectively bottleneck the probability flow and cause poor mixing of the Markov chain. For specific cases of binary pairwise undirected graphical models, we extend our results to further rigorously show that data coming from metastable states can be used to learn the parameters of the energy function and recover the structure of the model.