To identify metabolites present in the uterine milieu during the early stages of blastocyst elongation, flushings were taken from pregnant gilts on Days 9–11 of gestation. Flushings were sorted into one of five blastocyst treatment groups (flushings populations) according to conceptus morphology (embryo stage): uniform spherical (S, n = 8 gilts), heterogeneous spherical and ovoid (SO, n = 8 gilts), uniform ovoid (O, n = 8 gilts), heterogeneous ovoid and tubular (OT, n = 8 gilts), or uniform tubular (T, n = 6 gilts). Subsequently, uterine flushings populations were categorized into three classifications of elongation stage (classification stages): (a) pre‐elongation stage (S only), (b) initiation stages (SO and O), and (c) transitional stages (OT and T). The average homogeneities for each blastocyst treatment group were: S = 100%; SO = 62%; O = 100%; OT = 56%; and T = 90% [Color figure can be viewed at wileyonlinelibrary.com]