This paper presents an application of aerial magnetometry in the Alto Xingu Sub-Basin, Brazil. This large area of around 200,000 km2 is covered by large forests hampering terrestrial acquisitions. The aeromagnetic data acquired allow the study of a little explored region which is located in a sedimentary basin possible carrier of natural gas and also unconventional gas (shale gas). The aeromagnetic data received initial treatment by leveling and microleveling techniques. After this, the subtraction of the diurnal variation and IGRF field was performed to isolate the magnetic anomaly. Finally, we calculated the horizontal and vertical derivatives, analytic signal and reduction to magnetic equator of the magnetic anomaly that helped to identify the location of the main magnetic bodies. The maps obtained by magnetometry are compared with a Bouguer anomaly map and they are correlated to tectonic domains in the region.