It was Dovizioso's team-mate Andrea Iannone who was fastest on Saturday, but he had to settle for third best on day two, with Marc Marquez's Honda squeezed between the two Ducati.
Dovizioso's time of 1m54.907s, a mark that is 0.2s faster than Casey Stoner’s circuit record, was 0.184 seconds faster than Marquez, with Iannone just 0.013s further back.
The Yamaha's of Jorge Lorenzo and Valentino Rossi occupied positions four and five, with Dani Pedrosa in sixth.
There was less than a second separating the top 14 racers, and Cal Crutchlow, the leading satellite rider, was just 0.717s off the pace on his LCR Honda.
In eighth spot was Bradley Smith on a Tech 3 Yamaha, with his team-mate Pol Espargaro one-hundredth of a second further back.
Rounding out the top ten was Karel Abraham on an AB Honda.
Position Rider Team Bike Time Gap Laps
1 Andrea Dovizioso Ducati Ducati 1m54.907s 38
2 Marc Marquez Honda Honda 1m55.091s 0.184s 54
3 Andrea Iannone Ducati Ducati 1m55.104s 0.197s 46
4 Jorge Lorenzo Yamaha Yamaha 1m55.500s 0.593s 51
5 Valentino Rossi Yamaha Yamaha 1m55.581s 0.674s 61
6 Daniel Pedrosa Honda Honda 1m55.582s 0.675s 40
7 Cal Crutchlow LCR Honda 1m55.624s 0.717s 42
8 Bradley Smith Tech 3 Yamaha 1m55.648s 0.741s 49
9 Pol Espargaro Tech 3 Yamaha 1m55.658s 0.751s 46
10 Karel Abraham AB Motoracing Honda 1m55.765s 0.858s 41
11 Yonny Hernandez Pramac Racing Ducati 1m55.772s 0.865s 33
12 Aleix Espargaro Suzuki Suzuki 1m55.795s 0.888s 33
13 Scott Redding Marc VDS Honda 1m55.803s 0.896s 60
14 Maverick Vinales Suzuki Suzuki 1m55.810s 0.903s 42
15 Hector Barbera Avintia Racing Ducati 1m56.058s 1.151s 50
16 Nicky Hayden Aspar Honda 1m56.104s 1.197s 44
17 Mike Di Meglio Avintia Racing Ducati 1m56.259s 1.352s 53
18 Eugene Laverty Aspar Honda 1m56.342s 1.435s 54
19 Michele Pirro Ducati Ducati 1m56.476s 1.569s 32
20 Stefan Bradl Forward Racing Forward Yamaha 1m56.724s 1.817s 17
21 Jack Miller LCR Honda 1m56.758s 1.851s 50
22 Danilo Petrucci Pramac Racing Ducati 1m56.762s 1.855s 32
23 Loris Baz Forward Racing Forward Yamaha 1m56.936s 2.029s 40
24 Alvaro Bautista Aprilia Gresini Aprilia 1m57.273s 2.366s 46
25 Alex de Angelis IodaRacing Project ART/Aprilia 1m57.390s 2.483s 45
26 Marco Melandri Aprilia Gresini Aprilia 1m57.982s 3.075s 23