NEW YORK - UN Secretary of State Hillary Clinton, who just concluded her tour of Pakistan which billed as a fence-mending effort, said Friday she did not visit the country for "happy talk." IN an interview with CNN in Islamabad, she said her three-day trip was aimed at getting frank, open discussions going about the fight against terrorism, and that includes presenting U.S. concerns about how much success Pakistan is having. Clinton said it's time to "clear the air" with a key U.S. ally. She added, "I don't think the way you deal with negative feelings is to pretend they're not there." " I think it's important, if we are going to have the kind of cooperative partnership, that I think is in the best interest of both of our countries, for me to express some of the questions that are on the minds of the American people," Clinton told CNN's correspondentJill Dougherty. The secretary's comments came a day after she seemed to question the commitment of some in the Pakistani government for going after the leaders of al Qaeda, who U.S. intelligence experts believe are taking refuge in Pakistan's remote tribal areas. "Al Qaeda has had safe haven in Pakistan since 2002," she told a group of Pakistani journalists Thursday. "I find it hard to believe that nobody in your government knows where they are and couldn't get them if they really wanted to." She added, "Maybe they're not gettable. I don't know." In the CNN interview Friday, Clinton said she was not suggesting that someone inside the government might be complicit with al Qaeda or might be failing to follow through in fighting the terrorist group. "No, no," she said. "What I was responding to is what I have been really doing on this trip, which is there exists a trust deficit, certainly on the part of Pakistanis toward the United States, toward our intentions and our actions. And yet we have so much in common, we face a common threat. We certainly have a common enemy in extremism and terrorism, and so part of what I have been doing is answering every single charge, every question." Trust "is a two-way street," she added. While Pakistan's military operation has been "extremely courageous in both Swat and now in South Waziristan, success there is not sufficient," she said. "... I just want to keep putting on the table that we have some concerns as well. And I think ... that's the kind of relationship I'm looking to build here." I've ... reminded people that we've been partners and allies from the beginning of Pakistan's inception. Asked she had underestimated the level of anti-American sentiment in Pakistan, Clinton said, "No, because I've been following the research and the polling that's gone on for a couple of years. I knew that we were inheriting a pretty negative situation that we were going to have to address." That's why she wanted three days in the country, "a long trip for a secretary of state," she said. "I wanted to demonstrate that, look, we are not coming here claiming that everything we've done is perfect. I've admitted to mistakes by our country going back in time, but I've also reminded people that we've been partners and allies from the beginning of Pakistan's inception as a country. Pakistan has helped us on several important occasions, and we are very grateful for that. So let's begin to clear the air here." Meanwhile, in an interview with BBC, Secretary Clinton reaffirmed Washington's support for Pakistan's anti-terrorism struggle, saying "for many months, we have been encouraging and supporting the Pakistani people and their government to address the threat that they face." "And were very encouraged by the commitment that we are seeing. The Pakistani army has suffered many losses. Theyve made a lot of sacrifice to push back the Taliban advances first in Swat, now in South Waziristan. And that is answering a lot of the concerns that weve been expressing to them about the capacity and resolve to take on the threat that was posed to them. We think its a common threat. And so of course, we are very encouraged to see what the government is doing." "At the same time, it is just a fact that al-Qaeda (crossing over from Afghanistan) had sought refuge in Pakistan after the United States and our allies went after them (in Afghanistan in 2001) because of the attack on 9/11. "And we want to encourage everyone, not just the Pakistani Government or the military, but Pakistani citizens, to realize the connection between al-Qaeda and these Taliban extremists who are threatening Pakistan. "They are part of a syndicate of terror. So I want to express my hope that were going to be successful in finding and rooting out the terrorists who threaten us both." Clinton praised Pakistani security organizations' commitment in the anti-terror fight."Well, I believe that there is a great commitment and a sincere resolve. I spent several hours with the Army Chief of Staff, General (Ashfaq) Kayani, and the director of ISI, General (Shuja) Pasha last night, and we had a broad-ranging, in-depth discussion. So I am certainly encouraged by their commitment to this struggle that they are waging. And they are aware that even as we speak about the courageous fight theyre waging in South Waziristan, their challenge goes much more broadly than that. But I think that the resolve and capacity that they are demonstrating now leads me to conclude that they are going to see this fight through." The U.S. diplomat commended the shared commitment of Pakistan's elected government and the Pakistani army in going after militants posing threat to the country. Asked if Pakistan is interested mostly in tackling those elements of the Taliban that are a nuisance to them, and not so much those that are the real hard-core Afghan Talibans that are a problem for the U.S. troops in Afghanistan, she replied: "Well, I think its a question of prioritizing. What weve seen in the last months, certainly, since Ive been Secretary of State, is a joint commitment by the democratically elected government and the military and security forces. But their immediate threat are those who threaten them. I understand that completely. But since there is a connection between those who threaten them and those who threaten beyond their borders not just in Afghanistan, but in the rest of the world theyre well aware of our concern that attention be paid to the other elements of this terrorist syndicate. "And from my conversations with both the civilian leadership and the security leadership, I believe that they understand that there is a connection, and theyre going to be continuing this effort."