The Allen allegations

-- The Defense Department's inspector general is investigating allegations that Allen sent inappropriate messages to Kelley, the department said on Tuesday. The FBI told the department about the allegations on Sunday.

-- Allen has denied wrongdoing, a senior defense official said. Sources familiar with Kelley have said the relationship between the two was not sexual. Authorities are looking at the e-mails.

-- "There is no affair" between Allen and Kelley, a senior official close to Kelley said. "She is a bored rich socialite involved with every single senior commander at CENTCOM, because she worked as an honorary ambassador."

-- A U.S. official familiar with the e-mails Allen sent to Kelley described them as warranting the investigation. "If they got out, John Allen would be very embarrassed by them," said the official, who added that there was no evidence of physical contact between the two. A second U.S. official, who has had the e-mails described to him, characterized their content as "sexy," but could not say whether they "crossed the line."

Investigations and fallout

-- Broadwell, an Army Reserve officer, has had her government security clearance suspended pending the outcome of ongoing investigations, two U.S. officials with direct knowledge told CNN's Barbara Starr on Wednesday.

-- Broadwell's affair with Petraeus has raised questions about whether the affair gave her access to national security information that she shouldn't have. The allegedly harassing e-mails that the FBI allegedly tracked to Broadwell detailed the "comings and goings of the generals and Ms. Kelley," according to a source. Among those believed to be referenced in the e-mails was Petraeus. Because parts of Petraeus' schedule were not public, the e-mails raised questions about whether the sender had access to sensitive information.

-- In a speech at the University of Denver at the end of October, Broadwell suggested the attack on the U.S. compound in Benghazi took place because the United States was housing Libyan prisoners there -- a theory, she noted, that had not been vetted yet. The claim has since been discounted by administration officials. Broadwell's source for that previously unpublished information remains unclear, and there's no evidence that it came from Petraeus.

-- Investigators have found classified information on a computer belonging to Broadwell, a law enforcement source told CNN national security contributor Fran Townsend on Wednesday. It was not clear if this was a computer seized at her home Monday night or one she had previously given to authorities when she cooperated in September.

-- On Tuesday, John Nagl, a retired military officer who worked for Petraeus for years, said that Petraeus insists he never shared classified information with Broadwell. He spoke to him via e-mail on Monday and is authorized by Petraeus to talk.

-- Obama said Wednesday that he has seen no evidence of a potentially damaging breach in national security stemming from the affair involving Petraeus.

-- Obama also said Wednesday that Petraeus served his country with "great distinction," and he hoped that Petraeus' affair and resignation are "a single side note on what has otherwise been an extraordinary career."

"By his own assessment, he did not meet the standards that he felt were necessary as director of the CIA with respect to his personal matter that he is dealing with. ... It was on that basis that he tendered his resignation, and it was on that basis that I accepted it," Obama said.

-- Kelley's access to Florida's MacDill Air Force Base without an escort has been suspended, a Defense Department official said Wednesday. Kelley had been given special access to the base because of her position as a booster and promoter of programs to help U.S. troops, the official said.

-- Sen. Dianne Feinstein, D-California and chairwoman of the Senate Intelligence Committee, said she would investigate why the FBI did not notify congressional oversight committees about its investigation into Petraeus after the bureau determined he was having a secret extramarital affair.

-- While the nature of the relationship between Allen and Kelley, if any, is unclear, evidence of an affair could subject the general to military prosecution. Adultery is a violation of military law.

-- Obama has put Allen's nomination to become NATO's supreme allied commander on hold pending the outcome of the investigation, White House spokesman Jay Carney said on Tuesday.