The agency has also identified some suspected middlemen during the investigation.
"In the investigation conducted so far, some brokers and sub-brokers belonging to Hyderabad, Andhra Pradesh, Bengaluru and other places have been identified," a CID release stated.
The duo, identified as Vishnudhar alias Vishnuvardhan and Thirumal alias Thirumal Rao, were arrested from Hyderabad.
"Vishnuvardhan and Rao allegedly contacted students, parents and took about 25 of them to Bengaluru where one Rajagopal Reddy arranged practice of questions and answers to them (before appearing for the exams)," the release said.
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As part of its investigation, CID had yesterday taken three persons into custody, who it said came together, took out the question paper and trained some students who appeared for the exams and subsequently got more marks.
"During the course of investigation, suspected students were secured by the CID and were thoroughly examined. It was established that Telangana State EAMCET-II-2016 (Medical) question papers (two sets) were leaked before the date and time of exam," the agency said.
The Engineering, Agriculture and Medical Common Entrance Test (EAMCET-II) was conducted on July 9 and the results were declared on July 14. The examination was conducted by Jawaharlal Nehru Technological University (JNTU), Hyderabad.
Following reports about the leak of the question paper ahead of the examination, the JNTU officials had requested Telangana DGP Anurag Sharma to look into the issue, who in turn ordered a preliminary inquiry by CID on July 20.