Algorithms for the computation of alternative routes in road networks power many geographic navigation systems. A good set of alternative routes offers meaningful options to the user of the system and can support applications such as routing that is robust to failures (e.g., road closures, extreme traffic congestion, etc.) and routing with diverse preferences and objective functions. Algorithmic techniques for alternative route computation include the penalty method, via-node type algorithms (which deploy bidirectional search and finding plateaus), and, more recently, electrical-circuit based algorithms. In this work we focus on the practically important family of via-node type algorithms and aim to produce high quality alternative routes for road networks using a novel deep learning-based approach that learns a representation of the underlying road network.We show that this approach can support natural objectives, such as the uniformly bounded stretch, that are difficult and computationally expensive to support through traditional algorithmic techniques. Moreover, we achieve this in a practical system based on the Customizable Route Planning (CRP) hierarchical routing architecture. Our training methodology uses the hierarchical partition of the graph and trains a model to predict which boundary nodes in the partition should be crossed by the alternative routes. We describe our methods in detail and evaluate them against previously studied baselines, showing quality improvements in the road networks of Seattle, Paris, and Bangalore.