Do you pick up sub-species variation and if not is this a possibility in the future?

We do sometimes see different sequences assigned to the same species, however our assays are chosen to target species-level variation across a broad taxonomic group. These are therefore relatively slow-evolving markers that do not coincide with regions targeted for conservation genetics. Population genetics is theoretically possible with this sequencing technology but requires significant R&D in the selection and testing of the marker for each target species and is not something we currently offer as a service.