Foreign Office spokesman Nafees Zakaria said the security agencies are actively working to counter them.
Pakistan on Thursday alleged that India was involved in creating instability through "subversive and terrorist activities" in Karachi and Balochistan province.
Pakistan Foreign Office spokesman Nafees Zakaria said at a briefing that the international community had already been informed about the alleged Indian involvement.
"The apprehension of a serving officer of Indian intelligence agency RAW has vindicated Pakistan's longstanding position that Indian intelligence agencies are involved in subversive and terrorist activities in Pakistan especially Balochistan and Karachi," he said.
"Our security agencies are fully aware of all threats and are actively working to counter them, wherever required. You are aware that we have briefed the international community. As the investigations are in progress, we would apprise the world community accordingly," he added.
Zakaria also said that the all necessary actions have been taken based on "Kulbushan Yadav's confession and I am aware that many arrests have been taken place".
He said that the phenomenon of terrorism has affected Pakistan more than any other country in the world.
"We have deeper concern over foreign hands behind perpetration of terrorist attacks and terrorist financing in Pakistan," he said.
He said Pakistan was ready for dialogue with India to resolve all outstanding issues including Jammu and Kashmir. He said in addition to other issues, the dialogue would include the discussion on terrorism.
To a question about what was discussed when Prime Minister Nawaz Sharif called his Indian counterpart Narendra Modi before his operation, he said it was an exchange of telephone calls, which related to Sharif's health.
"This was hardly the occasion to discuss other issues though I am not privy to the exact details of the conversation," he said.
The spokesperson said Pakistan's NSG application stands on solid grounds of technical experience, capability and well-established commitment to nuclear safety.
"Pakistan has operated secure and safeguarded nuclear power plants for over 42 years. Safe and sustainable civil nuclear energy is essential for Pakistan's future energy security and its economic development," he said.
Zakaria said Pakistan's NSG membership is in the interest of nuclear trading countries as it will further promote NSG non-proliferation objectives by the inclusion of a state with nuclear supply capabilities and its adherence to guidelines.
"We are, therefore, hopeful that NSG decision for expansion in membership for non-NPT countries will be for an even-handed approach since any country-specific exception will not be beneficial for the non proliferation regime, the objective of strategic stability in South Asia or the credibility of NSG itself," he said.
To a question about India and Japan agreement to build six nuclear reactors in Andhra Pradesh, he said India was given a waiver.
"Our position on the issue has been very clear. We don't want any discriminatory treatment for any country which is not party to NPT. Pakistan calls for a non-discriminatory and criteria-based approach lest that would actually further add to the reasons disturbing the strategic stability in the region," he said.
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