The New York Times article they're using as their source doesn't say that, however. The article is also from 2012, and not dealing with the CIA's later program to arm rebels (which I believe started in 2013):
> Most of the arms shipped at the behest of Saudi Arabia and Qatar to supply Syrian rebel groups fighting the government of Bashar al-Assad are going to hard-line Islamic jihadists, and not the more secular opposition groups that the West wants to bolster, according to American officials and Middle Eastern diplomats.
...
> The United States is not sending arms directly to the Syrian opposition. Instead, it is providing intelligence and other support for shipments of secondhand light weapons like rifles and grenades into Syria, mainly orchestrated from Saudi Arabia and Qatar. The reports indicate that the shipments organized from Qatar, in particular, are largely going to hard-line Islamists.
The only mention of al Qaeda in the New York Times article is this:
> The disorganization is strengthening the hand of Islamic extremist groups in Syria, some with ties or affiliations with Al Qaeda, he said: “The longer this goes on, the more likely those groups will gain strength.”