| Passing | G | Comp | Att | Pct | Yds | Y/A | Y/G | TD | Int | Long | Sack | Yds/L | Fum | FumL |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Alex Smith | 16 | 273 | 445 | 61.3 | 3144 | 7.1 | 196.5 | 17 | 5 | 56 | 44 | 263 | 7 | 2 |
| Colin Kaepernick | 3 | 3 | 5 | 60.0 | 35 | 7.0 | 11.7 | 0 | 0 | 19 | 0 | 0 | 0 | 0 |
| David Akers | 16 | 1 | 1 | 100.0 | 14 | 14.0 | 0.9 | 1 | 0 | 14 | 0 | 0 | 0 | 0 |
| Rushing | G | Rush | Yds | Y/G | Avg | Long | TD | Fum | FumL |
|---|---|---|---|---|---|---|---|---|---|
| Frank Gore | 16 | 282 | 1211 | 75.7 | 4.3 | 55 | 8 | 2 | 2 |
| Kendall Hunter | 16 | 112 | 473 | 29.6 | 4.2 | 44 | 2 | 0 | 0 |
| Alex Smith | 16 | 52 | 179 | 11.2 | 3.4 | 14 | 2 | 7 | 2 |
| Anthony Dixon | 16 | 29 | 87 | 5.4 | 3.0 | 9 | 2 | 0 | 0 |
| Ted Ginn Jr. | 14 | 8 | 68 | 4.9 | 8.5 | 24 | 0 | 0 | 0 |
| Kyle Williams | 13 | 2 | 32 | 2.5 | 16.0 | 25 | 0 | 0 | 0 |
| Bruce Miller | 15 | 4 | 8 | 0.5 | 2.0 | 3 | 0 | 1 | 0 |
| Michael Crabtree | 15 | 1 | 6 | 0.4 | 6.0 | 6 | 0 | 0 | 0 |
| Delanie Walker | 15 | 3 | 5 | 0.3 | 1.7 | 14 | 0 | 0 | 0 |
| Colin Kaepernick | 3 | 2 | -2 | -0.7 | -1.0 | -1 | 0 | 0 | 0 |
| Vernon Davis | 16 | 2 | -5 | -0.3 | -2.5 | -2 | 0 | 3 | 1 |
| Andy Lee | 16 | 1 | -18 | -1.1 | -18.0 | -18 | 0 | 0 | 0 |
| Receiving | G | Rec | Yds | Y/G | Avg | Long | YAC | 1stD | TD | Fum | FumL |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Michael Crabtree | 15 | 72 | 874 | 58.3 | 12.1 | 52 | 377 | 40 | 4 | 0 | 0 |
| Vernon Davis | 16 | 67 | 792 | 49.5 | 11.8 | 44 | 346 | 33 | 6 | 3 | 1 |
| Kyle Williams | 13 | 20 | 241 | 18.5 | 12.1 | 56 | 104 | 14 | 3 | 0 | 0 |
| Ted Ginn Jr. | 14 | 19 | 220 | 15.7 | 11.6 | 26 | 48 | 11 | 0 | 0 | 0 |
| Josh Morgan | 5 | 15 | 220 | 44.0 | 14.7 | 30 | 103 | 12 | 1 | 0 | 0 |
| Delanie Walker | 15 | 19 | 198 | 13.2 | 10.4 | 29 | 68 | 9 | 3 | 0 | 0 |
| Kendall Hunter | 16 | 16 | 195 | 12.2 | 12.2 | 44 | 178 | 10 | 0 | 0 | 0 |
| Braylon Edwards | 9 | 15 | 181 | 20.1 | 12.1 | 24 | 48 | 9 | 0 | 0 | 0 |
| Frank Gore | 16 | 17 | 114 | 7.1 | 6.7 | 13 | 103 | 5 | 0 | 2 | 2 |
| Bruce Miller | 15 | 11 | 83 | 5.5 | 7.5 | 30 | 56 | 3 | 1 | 1 | 0 |
| Justin Peelle | 14 | 1 | 19 | 1.4 | 19.0 | 19 | 6 | 1 | 0 | 0 | 0 |
| Isaac Sopoaga | 15 | 1 | 18 | 1.2 | 18.0 | 18 | 15 | 1 | 0 | 0 | 0 |
| Joe Staley | 16 | 1 | 17 | 1.1 | 17.0 | 17 | 12 | 1 | 0 | 0 | 0 |
| Brett Swain | 5 | 2 | 15 | 3.0 | 7.5 | 9 | 11 | 1 | 0 | 0 | 0 |
| Anthony Dixon | 16 | 1 | 6 | 0.4 | 6.0 | 6 | 6 | 0 | 0 | 0 | 0 |
| Field Goals | PAT | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Kicking | G | 0-19 | 20-29 | 30-39 | 40-49 | 50+ | FGM | FGA | Pct | Long | XPM | XPA |
| David Akers | 16 | 2-2 | 16-16 | 13-14 | 6-11 | 7-9 | 44 | 52 | 80.9 | 55 | 34 | 34 |
| Kickoff Returns | Punt Returns | ||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Returns | G | KR | Yds | FC | Avg | Long | TD | PR | Yds | FC | Avg | Long | TD |
| Ted Ginn Jr. | 14 | 29 | 800 | 0 | 27.6 | 102 | 1 | 38 | 466 | 18 | 12.3 | 55 | 1 |
| Kendall Hunter | 16 | 6 | 156 | 0 | 26.0 | 43 | 0 | 0 | 0 | 0 | 0.0 | 0 | 0 |
| Kyle Williams | 13 | 4 | 104 | 0 | 26.0 | 33 | 0 | 2 | 41 | 4 | 20.5 | 36 | 0 |
| Reggie Smith | 16 | 0 | 0 | 0 | 0.0 | 0 | 0 | 4 | 37 | 1 | 9.3 | 14 | 0 |
| Tackles | Interceptions | Misc. | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| Defense | G | Solo | Ast | Total | Sack | YdsL | Int | Yds | IntTD | PD | Sfty |
| Navorro Bowman | 16 | 111 | 29 | 143 | 2.0 | 11 | 0 | 0 | 0 | 8 | 0 |
| Patrick Willis | 13 | 74 | 23 | 97 | 2.0 | 12 | 1 | 10 | 0 | 12 | 0 |
| Dashon Goldson | 14 | 55 | 12 | 67 | 0.0 | 0 | 6 | 53 | 0 | 9 | 0 |
| Donte Whitner | 15 | 49 | 13 | 62 | 0.0 | 0 | 2 | 48 | 0 | 10 | 0 |
| Justin Smith | 16 | 45 | 13 | 58 | 7.5 | 44 | 0 | 0 | 0 | 2 | 0 |
| Ahmad Brooks | 16 | 34 | 15 | 49 | 7.0 | 44 | 0 | 0 | 0 | 3 | 0 |
| Carlos Rogers | 16 | 41 | 3 | 44 | 0.0 | 0 | 6 | 106 | 1 | 18 | 0 |
| Tarell Brown | 16 | 36 | 4 | 40 | 0.0 | 0 | 4 | 15 | 0 | 15 | 0 |
| Larry Grant | 16 | 30 | 8 | 39 | 2.0 | 8 | 0 | 0 | 0 | 5 | 0 |
| Ray McDonald | 15 | 29 | 10 | 39 | 5.5 | 36 | 0 | 0 | 0 | 2 | 0 |
| Aldon Smith | 16 | 31 | 6 | 37 | 14.0 | 105 | 0 | 0 | 0 | 4 | 1 |
| Chris Culliver | 16 | 33 | 1 | 35 | 0.0 | 0 | 1 | 23 | 0 | 7 | 0 |
| Parys Haralson | 16 | 25 | 6 | 31 | 2.0 | 24 | 0 | 0 | 0 | 0 | 0 |
| Isaac Sopoaga | 15 | 20 | 11 | 31 | 0.0 | 0 | 0 | 0 | 0 | 0 | 0 |
| C.J. Spillman | 16 | 17 | 0 | 18 | 0.0 | 0 | 0 | 0 | 0 | 0 | 0 |
| Reggie Smith | 16 | 15 | 0 | 15 | 0.0 | 0 | 1 | 11 | 0 | 3 | 0 |
| Ricky Jean Francois | 16 | 12 | 3 | 15 | 0.0 | 0 | 0 | 0 | 0 | 2 | 0 |
| Blake Costanzo | 16 | 11 | 0 | 12 | 0.0 | 0 | 0 | 0 | 0 | 0 | 0 |
| Tavares Gooden | 16 | 11 | 0 | 11 | 0.0 | 0 | 0 | 0 | 0 | 0 | 0 |
| Madieu Williams | 15 | 6 | 2 | 9 | 0.0 | 0 | 0 | 0 | 0 | 0 | 0 |
| Delanie Walker | 15 | 7 | 0 | 8 | 0.0 | 0 | 0 | 0 | 0 | 0 | 0 |
| Colin Jones | 13 | 6 | 0 | 6 | 0.0 | 0 | 0 | 0 | 0 | 0 | 0 |
| Bruce Miller | 15 | 4 | 0 | 6 | 0.0 | 0 | 0 | 0 | 0 | 0 | 0 |
| Anthony Dixon | 16 | 6 | 0 | 6 | 0.0 | 0 | 0 | 0 | 0 | 0 | 0 |
| Shawntae Spencer | 9 | 4 | 1 | 5 | 0.0 | 0 | 0 | 0 | 0 | 1 | 0 |
| Tramaine Brock | 11 | 5 | 0 | 5 | 0.0 | 0 | 2 | 18 | 0 | 4 | 0 |
| David Akers | 16 | 2 | 0 | 2 | 0.0 | 0 | 0 | 0 | 0 | 0 | 0 |
| Will Tukuafu | 4 | 2 | 0 | 2 | 0.0 | 0 | 0 | 0 | 0 | 0 | 0 |
| Demarcus Dobbs | 12 | 2 | 0 | 2 | 0.0 | 0 | 0 | 0 | 0 | 0 | 0 |
| Frank Gore | 16 | 1 | 0 | 1 | 0.0 | 0 | 0 | 0 | 0 | 0 | 0 |
| Mike Iupati | 16 | 1 | 0 | 1 | 0.0 | 0 | 0 | 0 | 0 | 0 | 0 |
| Ted Ginn Jr. | 14 | 1 | 0 | 1 | 0.0 | 0 | 0 | 0 | 0 | 0 | 0 |
| Alex Smith | 16 | 1 | 0 | 1 | 0.0 | 0 | 0 | 0 | 0 | 0 | 0 |
| Adam Snyder | 16 | 1 | 0 | 1 | 0.0 | 0 | 0 | 0 | 0 | 0 | 0 |
| Joe Staley | 16 | 1 | 0 | 1 | 0.0 | 0 | 0 | 0 | 0 | 0 | 0 |