Techniques are disclosed relating to merge operations for multi-level data structures, such as log-structured merge-trees (LSM trees). A computer system may store, in a database, a plurality of files as part of an LSM tree and a plurality of database key structures. A given one of the plurality of database key structures may indicate, for a corresponding one of the plurality of files, a set of key ranges derived from database records that are included in the corresponding file. The computer system may determine, using ones of the plurality of database key structures, a key range overlap that is indicative of an extent of overlap of key ranges from a set of the plurality of files with respect to a particular key range. Based on the determined key range overlap, the computer system may assign a priority level to a merge operation that involves the set of files.