The remains had till now been stored at Mannar hospital.
The transfer was made at 10am, under the supervision of the Mannar judge, Aananthi Kanagaratnam. It is not known why the remains were moved.
The mass grave was first discovered in December last year, when construction workers found two human skeletons whilst digging in Thirukketheeswaram.
The following week, a further four skulls were unearthed, with more over subsequent weeks (see also here, here, here, here, here, here, here, and here), eventually totaling over 80.
The Bishop of Mannar, who had called for an international investigation into the mass grave due to the lack of credibility associated with any internal process, had earlier said that the holes in many of the skulls were believed to be from gunshot wounds.
Calls for an international investigation into the grave, were also made by the TNA earlier this year.