Successful clinical use of patient-specific models for cardiovascular dynamics depends on the reliability of the model output in the presence of input uncertainties. For 1D fluid dynamics models of arterial networks, input uncertainties associated with the model output are related to the specification of vessel and network geometry, parameters within the fluid and wall equations, and parameters used to specify inlet and outlet boundary conditions. This study investigates how uncertainty in the flow profile applied at the inlet boundary of a 1D model affects area and pressure predictions at the center of a single vessel. More specifically, this study develops an iterative scheme based on the ensemble Kalman filter (EnKF) to estimate the temporal inflow profile from a prior distribution of curves. The EnKF-based inflow estimator provides a measure of uncertainty in the size and shape of the estimated inflow, which is propagated through the model to determine the corresponding uncertainty in model predictions of area and pressure. Model predictions are compared to ex vivo area and blood pressure measurements in the ascending aorta, the carotid artery, and the femoral artery of a healthy male Merino sheep. Results discuss dynamics obtained using a linear and a nonlinear viscoelastic wall model.