Buildings were left in ruins and cars reduced to flaming wrecks when the Hercules C-130 came down in a residential area of Medan, a city of two million on the island of Sumatra.
Air force chief Agus Supriatna said the manifest showed there were 113 people on board the plane -- 12 crew and 101 passengers -- when it crashed, and he did not believe any had survived.
"No, no. No survivors, I have just returned from the site," he told AFP in answer to a question.
Many passengers were likely to be family members of servicemen and women, said a spokesman for Medan airbase from where the plane departed. At least one child has so far been confirmed killed.
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The local search and rescue agency also said that three people were killed on the ground when the 51-year-old plane went down near a newly built residential area, hitting a massage parlour and a small hotel.
Police said rescuers were still trying to get into the ruined massage parlour, a three-storey building, and they did not know whether there were people inside.
Residents described the terrifying moment just after midday when the plane came down.
"It was very scary," said Novi, an employee of an international school who goes by one name, describing how she heard the plane and saw it flying very low before the crash.
Another local resident Januar, 26, said the aircraft appeared to be in trouble just before the accident: "I saw the plane from the direction of the airport and it was tilting already, then I saw smoke billowing."
Indonesian President Joko Widodo expressed sorrow at the accident, tweeting: "May the families be given patience and strength... May we remain protected from disaster."
The disaster once again shone a harsh light on Indonesia's poor aviation safety record. It came just six months after an AirAsia plane crashed into the Java Sea, killing all 162 people on board.
It also raised questions about the Indonesian military's aircraft -- it was the sixth fatal crash involving an Indonesian air force plane in the past decade, according to the Aviation Safety Network.