Single-walled carbon nanohorns (CNHs) have great potential in diverse applications such as gas storage, catalyst support, and drug carriers. Although chemical functionalization of CNHs is critical for enhancing the dispersibility and handling in solution, they inherently form robust spherical "dahlia-like" aggregates, which may inhibit chemical reactivity. Theoretical and experimental studies have identified spatial information related to the functional groups on each tubule. However, the overall characteristics of dahlia-like aggregates remain unclear. Herein, highly spatial-resolved energy-dispersive X-ray spectrometry analysis in scanning electron microscopy is employed to elucidate the spatial distribution of functional groups on dahlia-like aggregates. The technique clearly visualizes the elemental distribution associated with the functional groups on the dahlia-like structure. Additionally, it is found that the outer surface of an individual CNH dahlia-like aggregate is functionalized while the inner core remains almost unreacted. Hence, the present findings provide fundamental information about the sites in CNHs that can be modified by chemical functionalization.