"Influenza activity is increasing at the present time, it's what we characteristically see - these steep rises as the virus spreads throughout New Zealand and causes these explosive outbreaks of infection.
"And we've seen that with Bay of Plenty being affected, and then Hawkes Bay, and now Wellington region being affected."
He said this causes considerable burden on the health systems of those regions for a short period.
Dr Jennings said they did not know whether the levels were going to reach the 2010 or 2012 peaks, or whether it was going to follow what they have seen in recent years.
"I anticipate that [with] the school children going back to school next week we're going to see this curve go up for one or two weeks and then taper off."
Health Minister Jonathan Coleman announced on Wednesday that the influenza immunisation programme would be extended until the end of next month.
The extension followed reports of the unusual pattern of sickness developing in the North and South Islands, with health professionals recording peaks of different influenza strains - something not seen in more than 30 years.
"The A-H3N2 strain, which is covered by the vaccine, appears to be the predominant type - this strain affects the elderly and very young more severely than other strains," Dr Coleman said.
Dr Jennings said last night that New Zealand was about 10,000 flu vaccines short of last year's record of 1.20 million doses distributed.