| RK | Name | H/L | Time | Gap | Q |
|---|---|---|---|---|---|
| 1 | Nagy Nándor (2006)Románia | 03:47.24 100.044% | - | D4 | |
| 2 | Pápai Olivér (2009)UNI Győri Úszó Sportegy. | 03:48.44 101.932% | 01.20 | D5 | |
| 3 | Rasovszky Kristóf (1997)Balaton ÚK Veszprém | 03:49.04 96.582% | 01.80 | D3 | |
| 4 | Hartmann Máté (2005)Pécsi Sportiskola | 03:50.05 98.701% | 02.81 | D6 | |
| 5 | Gálicz László (2004)FTC | 03:51.93 100.902% | 04.69 | D2 | |
| 6 | Poteczin Dániel (2006)Érdi Vízisport Kft | 03:53.18 98.072% | 05.94 | D7 | |
| 7 | Kreisz Bálint (2009)Debreceni Sportc. SI | 03:54.10 100.417% | 06.86 | D1 | |
| 8 | Kárpáti Máté (2008)Újpesti Torna Egylet | 03:54.19 100.153% | 06.95 | D8 | |
| 9 | Buda Levente (2008)UNI Győri Úszó Sportegy. | 03:55.51 99.372% | 08.27 | ||
| 10 | Grandpierre Krisztián (2007)FTC | 03:55.70 102.672% | 08.46 | ||
| 11 | Holló Balázs (1999)BVSC-Zugló | 03:57.47 93.094% | 10.23 | ||
| 12 | Kaiser Dominik (2007)Budapesti Honvéd SE | 03:58.88 97.648% | 11.64 | ||
| 13 | Lengyeltóti Bence (2001)Kaposvári Adorján | 03:58.94 103.669% | 11.70 | ||
| 14 | Deák Levente (2005)UNI Győri Úszó Sportegy. | 04:01.04 95.509% | 13.80 | ||
| 15 | Urban Richard (2007)VŠK FTVŠ UK Lafranconi | 04:02.11 100.087% | 14.87 | ||
| 16 | Barabás Imre Dávid (2004)Balaton ÚK Veszprém | 04:02.20 99.477% | 14.96 | ||
| 17 | Szappanos Kristóf (2007)Budaörsi Sport Club | 04:03.18 99.612% | 15.94 | T1 | |
| 18 | Kakuk Koppány Zéta (2008)Kaposvári Sportközpont és Sportiskola | 04:04.23 94.016% | 16.99 | T2 | |
| 19 | Páva Olivér (2008)A Jövő SC | 04:06.26 100.292% | 19.02 | ||
| 20 | Varga Levente (2008)Vasas Sport Club | 04:06.82 99.471% | 19.58 | ||
| 21 | Sudár Norbert (2009)Újpesti Torna Egylet | 04:07.56 99.566% | 20.32 | ||
| 22 | Patlók Olivér (2009)A Jövő SC | 04:09.90 98.904% | 22.66 | ||
| 23 | Huszti Márton (2009)Darnyi Tamás SC | 04:10.30 98.856% | 23.06 | ||
| 24 | Demetriou Georgios (2008)Nautical Club of Larnaca | 04:13.64 101.365% | 26.40 | ||
| 25 | Varga István János (2009)Darnyi Tamás SC | 04:20.13 94.080% | 32.89 | ||
| - | Kovács Attila (2004)Egri Úszó Klub SE | DNS - | |||