| Year | Team | G | AB | H | HR | RBI | SB | BB | K | AVG | OBP | SLG | OPS |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1997 | Florida Marlins | 14 | 52 | 10 | 0 | 4 | 3 | 4 | 7 | .192 | .250 | .250 |
| .500 |
| 1998 | Florida Marlins | 154 | 578 | 161 | 11 | 68 | 10 | 34 | 61 | .279 | .318 | .403 | .721 |
| 1999 | Florida Marlins | 148 | 495 | 134 | 8 | 50 | 7 | 29 | 50 | .271 | .306 | .402 | .708 |
| 2000 | Florida Marlins | 152 | 530 | 158 | 12 | 57 | 19 | 42 | 46 | .298 | .347 | .443 | .790 |
| 2001 | San Diego Padres | 119 | 406 | 118 | 10 | 58 | 13 | 48 | 58 | .291 | .366 | .441 | .807 |
| 2002 | San Diego Padres | 153 | 578 | 169 | 17 | 61 | 11 | 59 | 89 | .292 | .359 | .452 | .811 |
| 2003 | San Diego Padres | 128 | 482 | 128 | 7 | 38 | 6 | 56 | 82 | .266 | .343 | .384 | .727 |
| 2004 | Oakland Athletics | 148 | 606 | 190 | 15 | 63 | 8 | 55 | 70 | .314 | .370 | .459 | .829 |
| 2005 | Oakland Athletics | 139 | 582 | 163 | 15 | 82 | 5 | 40 | 51 | .280 | .325 | .421 | .746 |
| 2006 | Oakland Athletics | 129 | 502 | 138 | 7 | 59 | 6 | 44 | 55 | .275 | .332 | .386 | .718 |
| 2007 | Oakland Athletics | 56 | 206 | 44 | 1 | 20 | 1 | 19 | 20 | .214 | .279 | .296 | .575 |
| 2008 | Atlanta Braves | 88 | 318 | 92 | 6 | 37 | 2 | 25 | 34 | .289 | .340 | .418 | .758 |
| 2008 | Boston Red Sox | 22 | 84 | 19 | 0 | 12 | 0 | 7 | 11 | .226 | .286 | .345 | .631 |
| 2008 | 110 | 402 | 111 | 6 | 49 | 2 | 32 | 45 | .276 | .329 | .403 | .732 |
| 2009 | Boston Red Sox | 27 | 74 | 19 | 1 | 5 | 2 | 4 | 12 | .257 | .291 | .324 | .615 |
| 2009 | Chicago White Sox | 40 | 113 | 33 | 3 | 18 | 1 | 11 | 9 | .292 | .349 | .434 | .783 |
| 2009 | 67 | 187 | 52 | 4 | 23 | 3 | 15 | 21 | .278 | .327 | .390 | .717 |
| 2010 | Chicago White Sox | 107 | 327 | 78 | 8 | 31 | 1 | 32 | 36 | .239 | .306 | .376 | .682 |
| 2011 | Milwaukee Brewers | 104 | 233 | 63 | 3 | 31 | 3 | 21 | 27 | .270 | .329 | .373 | .702 |
| 2012 | San Diego Padres | 82 | 143 | 37 | 2 | 14 | 0 | 11 | 14 | .259 | .314 | .357 | .671 |
| 2013 | San Diego Padres | 104 | 155 | 30 | 1 | 12 | 0 | 13 | 25 | .194 | .253 | .226 | .479 |
| Career | — | 1,914 | 6,464 | 1,784 | 127 | 720 | 98 | 554 | 757 | .276 | .332 | .404 | .736 |
