| P | Rider | Team | Km/h | Time | Gap 1st/Prev. | |||
|---|---|---|---|---|---|---|---|---|
| 1 | Andrea Iannone | Pramac Racing | 287.0 | 01:34.120 | ||||
| 2 | Andrea Dovizioso | Ducati | 288.3 | 01:34.155 | 0.035 / 0.035 | |||
| 3 | Jorge Lorenzo | Movistar Yamaha | 284.2 | 01:34.256 | 0.136 / 0.101 | |||
| 4 | Marc Marquez | Repsol Honda | 286.0 | 01:34.284 | 0.164 / 0.028 | |||
| 5 | Dani Pedrosa | Repsol Honda | 287.2 | 01:34.420 | 0.300 / 0.136 | |||
| 6 | Valentino Rossi | Movistar Yamaha | 286.2 | 01:34.452 | 0.332 / 0.032 | |||
| 7 | Aleix Espargaro | Forward Racing | 280.8 | 01:34.580 | 0.460 / 0.128 | |||
| 8 | Bradley Smith | Tech 3 | 287.7 | 01:34.586 | 0.466 / 0.006 | |||
| 9 | Pol Espargaro | Tech 3 | 289.3 | 01:34.603 | 0.483 / 0.017 | |||
| 10 | Alvaro Bautista | Go&Fun Honda | 287.2 | 01:34.766 | 0.646 / 0.163 | |||
| 11 | Stefan Bradl | LCR Honda | 286.6 | 01:34.857 | 0.737 / 0.091 | |||
| 12 | Yonny Hernandez | Pramac Racing | 285.4 | 01:34.899 | 0.779 / 0.042 | |||
| 13 | Cal Crutchlow | Ducati | 282.6 | 01:35.366 | 1.246 / 0.467 | |||
| 14 | Scott Redding | Go&Fun Honda | 272.3 | 01:35.401 | 1.281 / 0.035 | |||
| 15 | Hiroshi Aoyama | Drive M7 Aspar | 280.2 | 01:35.555 | 1.435 / 0.154 | |||
| 16 | Leon Camier* | Drive M7 Aspar | 271.5 | 01:36.347 | 2.227 / 0.792 | |||
| 17 | Karel Abraham | Cardion AB | 277.7 | 01:36.445 | 2.325 / 0.098 | |||
| 18 | Alex de Angelis | Forward Racing | 280.0 | 01:36.924 | 2.804 / 0.479 | |||
| 19 | Michael Laverty | Paul Bird | 276.0 | 01:37.183 | 3.063 / 0.259 | |||
| 20 | Mike di Meglio | Avintia Racing | 275.4 | 01:37.379 | 3.259 / 0.196 | |||
| 21 | Danilo Petrucci | IodaRacing | 268.4 | 01:37.417 | 3.297 / 0.038 | |||
| 22 | Hector Barbera | Avintia Racing | 275.5 | 01:37.579 | 3.459 / 0.162 | |||
| 23 | Broc Parkes | Paul Bird | 271.2 | 01:38.542 | 4.422 / 0.963 |
*Substitute for Nicky Hayden
Note: Drive M7 Aspar rider Nicky Hayden was ruled out of the San Marino Grand Prix