| Upper Snake River Basin | Snake River below Jackson Lake |
| Upper Snake River Basin | Gros Ventre River at Zenith, WY |
| Upper Snake River Basin | Snake River below Flat Creek near Jackson, WY |
| Upper Snake River Basin | Snake River above reservoir near Alpine, WY |
| Upper Snake River Basin | Greys River above reservoir near Alpine, WY |
| Upper Snake River Basin | Snake River near Irwin, ID (below Palisades Reservoir) |
| Upper Snake River Basin | Snake River near Heise, ID |
| Henrys Fork Basin | Henrys Fork near Island Park, ID |
| Henrys Fork Basin | Henrys Fork near Ashton, ID |
| Henrys Fork Basin | Fall River above Yellowstone Canal near Squirrel, ID |
| Henrys Fork Basin | Fall River near Squirrel, ID |
| Henrys Fork Basin | Fall River near Ashton, ID |
| Henrys Fork Basin | Teton River above South Leigh Creek near Driggs, ID |
| Henrys Fork Basin | Teton River near St. Anthony, ID |
| Middle Snake River | Snake River near Blackfoot, ID |
| Middle Snake River | Snake River at Neeley, ID |
| Middle Snake River | Snake River at Milner, ID |
| Big Lost and Big Wood Rivers | Big Lost River at Howell Ranch near Chilly, ID |
| Boise River Basin | Boise River near Twin Springs, ID |
| Boise River Basin | South Fork Boise River near Featherville, ID |
| Boise River Basin | South Fork Boise River at Anderson Ranch Dam, ID |
| Boise River Basin | Lucky Peak Reservoir outflow |
| Boise River Basin | Boise River at Glenwood Bridge near Boise, ID |
| Boise River Basin | Boise River near Parma, ID |
| Payette River Basin | South Fork Payette River at Lowman, ID |
| Payette River Basin | Deadwood River below Deadwood Reservoir near Lowman, ID |
| Payette River Basin | Middle Fork Payette River near Crouch, ID |
| Payette River Basin | North Fork Payette River at McCall, ID |
| Payette River Basin | North Fork Payette River at Cascade, ID |
| Payette River Basin | Payette River near Horseshoe Bend, ID |
| Southwestern Idaho | Snake River at King Hill, ID |
| Southwestern Idaho | Bruneau River near Hot Spring, ID |
| Southwestern Idaho | Snake River near Murphy, ID |
| Southwestern Idaho | Owyhee River near Rome, OR |
| Southwestern Idaho | Snake River at Weiser, ID |
| Salmon River Basin | Salmon River below Yankee Fork near Clayton, ID |
| Salmon River Basin | Salmon River at Salmon, ID |
| Salmon River Basin | Middle Fork Salmon River at Middle Fork Lodge near Yellow Pine, ID |
| Salmon River Basin | South Fork Salmon River near Krassel Ranger Station, ID |
| Salmon River Basin | Johnson Creek at Yellow Pine, ID |
| Salmon River Basin | Little Salmon River at Riggins, ID |
| Salmon River Basin | Salmon River at White Bird, ID |
| Lower Snake River Basin | Snake River below Hells Canyon Dam |
| Lower Snake River Basin | Grande Ronde River at Troy, OR |
| Lower Snake River Basin | Snake River near Anatone, WA |
| Upper Clearwater River Basin | Selway River near Lowell, ID |
| Upper Clearwater River Basin | Lochsa River near Lowell, ID |
| Upper Clearwater River Basin | South Fork Clearwater River at Stites, ID |
| Upper Clearwater River Basin | Clearwater River at Orofino, ID |
| Upper Clearwater River Basin | North Fork Clearwater River near Canyon Ranger Station, ID |
| Lower Clearwater River Basin | Dworshak Dam outflow |
| Lower Clearwater River Basin | Dworshak Reservoir near Ahsahka, ID |
| Lower Clearwater River Basin | Clearwater River at Spalding, ID |
| Northern Idaho River Basins | Moyie River at Eastport, ID |
| Northern Idaho River Basins | Priest River near Priest River, ID |
| Northern Idaho River Basins | St. Joe River at Calder, ID |
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