I'll add in what I can here from my interview trail... I can comment on Northwestern, Utah, Michigan, Dartmouth, and Oregon. In almost every place I interviewed, research opportunities were available-- it's just a question of time and dedication.
1. MGH/Partners-Lots of research opportunities (MGH/BW/HMS/MIT) in 3-4 year if highly motivated
2. UCSF-Lots of research opportunities (clinical and basic).Flex program, allowing for 6 solid months of research
3. Columbia-Not enough time; Research oriented program though.
4. Hopkins-Lots of research opportunities. Almost required. More doable in the 4th year.
5. Penn
6. Mayo Clinic-lots of time and opportunity for clinical research. Opportunites to get masters, and even PhD.
7. WashU-Research encouraged, and lots of time to do it.
8. Stanford
9. UCLA-Research optional, and lots of time to do it in years 3-4, if motivated.
10. BI
NEXT TIER
11. Cornell
12. Yale
13. UT Southwestern- in 3-4 year if highly motivated. Clinical>>basic
14. Emory U-in 3-4 year if highly motivated
15. Duke
16. U of Rochester- research available. Clinical>Translational>basic, but one must show interest.
17. Michigan-- research opportunities available, but not a ton of time in which to do it.
18. Virginia
19. Cleveland Clinic
20. Mount Sinai
ANOTHER TIER
21. UCSD
22. U of Chicago-Not enough time; Research oriented program though.
23. Baylor
24. Rush-clinically oriented. Research available if motivated enough.
25. Oregon- also more clinically oriented, though research opportunities are available.
26. Miami
27. USC-research available if motivated. Basic and clinical.
28. Albert Einstein
29. Case Western
30. Tufts
31. Colorado-- did an away rotation here, and enjoyed it. Opportunities exist, but it doesn't seem to be an emphasis.
32. Brown
33. UIC-research available if motivated. Clinical>basic
34. North Carolina
35. UAB
36. Thomas Jefferson
37. Northwestern-- I certainly hope there's research available-- that's one of the reasons I ranked them highly.
38. NYU
39. Arizona
40. Utah-- research opportunities available, and there seems to be time to do it.
41. Pittsburgh
42. George Washington
43. Cincinnati
44. U of Washington-Not enough time, unless highly motivateed; Research oriented program though.
45. U of Florida
46. Drexel
47. Vanderbilt
48. Iowa
49. UMass
50. Barrows Institute/Arizona
51. Georgetown
52. Boston U
53. Tulane
54. UMDNJ
55. Mayo/Scottdale
56. UTexas/Houston
57. Maryland
58. Minnesota
59. Wake Forest
60. Saint Louis
61. UC Irvine
62. Wisconsin/Madison-Research discouraged. Excellent clinical program.
63. UC Davis
64. Henry Ford
65. Mayo/Jacksonville
66. Loyola
67. LSU
68. Cleveland Clinic/Weston
69. Michigan State
70. Indiana
71. Long Island Jewish
72. Dartmouth-- research is encouraged.
73. St. Vincents/NY
74. Kentucky
75. Loma Linda
76. Temple
77. Medical College of Georgia
78. SUNY/Syracuse
79. UConn
80. Ohio State
81. New Mexico
82. SUNY/Buffalo