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Dr. Robert Califf, former FDA commissioner and Duke School of Medicine professor, and Brett McClung, CEO at Baptist Health, discuss coronavirus vaccine distribution on “Squawk on the Street.” For access to live and exclusive video from CNBC subscribe to CNBC PRO: https://cnb.cx/2NGeIvi

The United States will not inoculate as many people against the coronavirus by the end of the year as federal officials originally estimated, President Donald Trump’s Covid-19 vaccine czar said Wednesday.

According to the Centers for Disease Control and Prevention’s latest count, more than 11.4 million doses of Pfizer’s and Moderna’s two-dose vaccines have been distributed across the country as of Monday morning, but just 2.1 million or so shots have been given to people. That’s far short of U.S. health officials’ original goal of injecting at least 20 million Americans with their first doses before the end of the year.

“We agree that that number is lower than what we had hoped for,” Moncef Slaoui, chief advisor of Operation Warp Speed, said during a news briefing. “We know that it should be better, and we’re working hard to make it better,” he said.

The CDC has acknowledged that its own data is out of date due to delays in receiving it from the states and jurisdictions that report it to federal officials. “A large difference between the number of doses distributed and the number of doses administered is expected at this point in the COVID vaccination program due to several factors,” the agency said.

U.S. Army Gen. Gustave Perna, who oversees logistics for Operation Warp Speed, said he was working to resolve the delay in data reporting, which currently lags by 72 to 96 hours. The CDC updates its vaccine counts every Monday, Wednesday and Friday at 9 a.m. ET, according to the agency.

Nonetheless, the U.S. is “really doing well” with distribution so far, Perna said, adding that the true number of distributed doses is now more than 14 million. The operation began shipping second doses of Pfizer’s vaccine this week for the people who were inoculated with a first shot in mid-December.

The CDC says on its website that the federal government hasn’t yet launched its vaccine distribution partnership with major pharmacy chains like CVS and Walgreens, which have been tasked with vaccinating long-term care residents.

CVS Health spokesman T.J. Crawford told CNBC on Wednesday, however, that the pharmacy chain was administering the vaccines at long-term care facilities in 48 states and Washington, D.C., as of early this week. Walgreens spokeswoman Kelli Teno said the company is providing vaccines across 48 states and Washington, D.C., as of this week, too.

Despite the delays, Operation Warp Speed spokesman Michael Pratt said the U.S. is close to meeting its goal of injecting 20 million Americans with their first shot by the end of the year.

“Operation Warp Speed remains on track to have approximately 40 million doses of vaccine and allocate 20 million doses for first vaccinations by the end of December 2020, with distribution of the 20 million first doses spanning into the first week of January as states place orders for them,” he said in a statement.

Perna also applauded state health officials for their work rolling out the doses so far, contradicting President Donald Trump who took to Twitter earlier in the day to blame the states for the slower-than-expected rollout, saying the U.S. has distributed the lifesaving shots but states have to administer them.

“The Federal Government has distributed the vaccines to the states,” the president said in a tweet. “Now it is up to the states to administer. Get moving!”

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