There is provided a tool assembly for transferring locations and dimensions of a pattern of holes from a first structure to a second structure. The tool assembly has a transfer plate with a transfer plate pattern of transfer plate holes that include a plurality of oversize holes and two transfer plate index holes. The transfer plate pattern is substantially identical to the pattern in the first structure. The tool assembly has one or more alignment elements installed in the plurality of oversize holes. Each alignment element has a through opening in a coaxial alignment with the oversize hole. The oversize hole allows formation of an alignment variation gap between an exterior of the alignment element and an inner wall of the oversize hole. The tool assembly has one or more holding elements coupled to the transfer plate, each with a central through opening in coaxial alignment with the oversize hole.