He was informed of the two cases, one in Chelmsford and one in Nottingham, late on Friday (November 26) night, Javid said in a broadcast clip.
The two individuals and all members of their households are being re-tested and told to self-isolate while further testing and contact tracing is done, the health ministry said.
England will also add Malawi, Mozambique, Zambia and Angola to its travel "red list" from 0400 GMT on Sunday (November 28), meaning British and Irish residents who arrive in the country must quarantine in a government-approved hotel for 10 days. Non-residents will be refused entry.
That list already contained Botswana, Eswatini, Lesotho, Namibia, South Africa and Zimbabwe.
Prime Minister Boris Johnson and the Chief Scientific Adviser Patrick Vallance and Chief Medical Officer Chris Whitty will hold a news conference later on Saturday (November 27) "to set out further measures", Javid said.