Singlet fission generates multiple excitons from a single photon, which in theory can result in solar cell efficiencies with values above the Shockley-Queisser limit. Understanding the molecular structural dynamics during singlet fission will help to fabricate efficient organic photovoltaic devices. Here we use femtosecond stimulated Raman spectroscopy to reveal the structural evolution during the triplet separation in rubrene. We observe vibrational signatures of the correlated triplet pair, as well as shifting of the vibrational frequencies of the 1430 and 1542 cm-1 excited state modes, which increase by more than 25 cm-1 in 5 ps. Our results indicate that the correlated pair separation into two individual triplets occurs concurrently with the loss of electron density from the tetracene backbone in rubrene. This study provides new insights into the triplet separation process and proves the utility of structurally sensitive ultrafast vibrational techniques to understand the mechanism of singlet fission.