Note that surface areas for edge basins (e.g. Nile, Zaire) represent only surface area within the boundaries of the model (South of 40' S)
| Megabasin Name | TOTAL AREA (km2) | Number of watersheds | Maximum LEVEL |
| ANIB | 6 738 | 1 | 1 |
| BAHU SWAMP | 27 056 | 1 | 1 |
| BALBOL AMBUSSEL | 11 334 | 1 | 1 |
| BALBOL AMBUSSEL 2 | 1 018 | 1 | 1 |
| BALOMBO | 4 544 | 1 | 1 |
| BENGO | 11 365 | 1 | 1 |
| BLACK UMBULUZI | 6 674 | 1 | 1 |
| BREE | 12 246 | 1 | 1 |
| BUFFELS | 10 801 | 1 | 1 |
| BUSCBUSC | 808 | 1 | 1 |
| BUZI | 28 844 | 5 | 3 |
| CAPOROLA | 15 595 | 1 | 1 |
| CARUNJAMBA | 7 070 | 1 | 1 |
| CATUMBELA | 16 572 | 3 | 2 |
| COASTAL DRAINAGE | 377 679 | 76 | 2 |
| COASTAL RIVER | 11 737 | 3 | 2 |
| COROCA | 19 682 | 1 | 1 |
| CUACUA | 19 193 | 3 | 3 |
| CUANZA (Kwanza) | 151 241 | 21 | 9 |
| CUBAL | 16 658 | 2 | 1 |
| CUNENE | 112 328 | 17 | 9 |
| CUVO | 23 124 | 1 | 1 |
| DANDE | 11 871 | 1 | 1 |
| EMUGUR ORETATI | 6 127 | 1 | 1 |
| ETOSHA PAN | 161 170 | 9 | 3 |
| GALANA | 48 331 | 5 | 3 |
| GAMTOOS | 34 284 | 5 | 3 |
| GIRAUL | 5 252 | 1 | 1 |
| GORONGOSA | 9 808 | 1 | 1 |
| GOURITS | 45 487 | 9 | 4 |
| GROEN | 4 367 | 1 | 1 |
| GROOT-BERG | 7 886 | 2 | 2 |
| GROOT-KEI | 20 525 | 3 | 2 |
| GROOT-VIS | 30 464 | 3 | 2 |
| GURURO | 17 223 | 1 | 1 |
| HOANIB | 16 130 | 1 | 1 |
| HOARUSIB | 15 910 | 1 | 1 |
| HUAB | 17 846 | 3 | 2 |
| INCOMATI | 46 569 | 8 | 4 |
| KASHA GURGURDA (waterhole) | 688 | 1 | 1 |
| KOICHAB | 15 596 | 2 | 1 |
| KUISEB | 18 197 | 1 | 1 |
| LAC YOUBI | 1 725 | 1 | 1 |
| LAKE BANAMANA | 4015 | 1 | 1 |
| LAKE BURUNGI | 11 786 | 3 | 2 |
| LAKE CHILWA | 8 780 | 1 | 1 |
| LAKE EYASI | 63 655 | 12 | 6 |
| LAKE JIPE | 2 826 | 1 | 1 |
| LAKE MAGADI | 8 564 | 2 | 2 |
| LAKE MANYARA | 4 912 | 2 | 2 |
| LAKE NAIVASHA | 751 | 1 | 1 |
| LAKE NATRON | 21 040 | 5 | 3 |
| LAKE RUKWA | 73 328 | 14 | 4 |
| LAKE ST. LUCIA | 9 128 | 2 | 2 |
| LARDE | 3 858 | 1 | 1 |
| LICUNGO | 23 260 | 3 | 2 |
| LIGONHA | 15 263 | 1 | 1 |
| LIMPOPO | 421 683 | 56 | 17 |
| LOGE | 11 838 | 1 | 1 |
| LONGA | 22 596 | 3 | 2 |
| LUKULEDI | 6 467 | 1 | 1 |
| LURIO | 61606 | 3 | 2 |
| MAPUTO | 30 827 | 5 | 3 |
| MATANDU | 14 732 | 1 | 1 |
| MBASHE | 6 119 | 1 | 1 |
| MBWENKURU | 17718 | 1 | 1 |
| MEBRIGEDE | 18 176 | 1 | 1 |
| MEGARUMA | 5 403 | 1 | 1 |
| MELELA | 8 609 | 1 | 1 |
| MELULI | 9 445 | 1 | 1 |
| MESSALO | 25 100 | 1 | 1 |
| MFOLOZI | 10 226 | 1 | 1 |
| MGENI | 4411 | 1 | 1 |
| MINU | 262 | 1 | 1 |
| MKOMAZI | 4 520 | 1 | 1 |
| MLIGASI | 3 007 | 1 | 1 |
| MNGAZI RUVU | 17 791 | 1 | 1 |
| MOCUBURI | 10 257 | 1 | 1 |
| MOLOCUE | 6413 | 1 | 1 |
| MONAPO | 8 431 | 1 | 1 |
| MONTEPUEZ | 9 357 | 1 | 1 |
| MSANGASI | 4 224 | 1 | 1 |
| MUCARAU | 3 291 | 1 | 1 |
| MZIMKHULU | 6 846 | 1 | 1 |
| MZIMVUBU | 772 | 1 | 1 |
| NAMACURRA | 3 544 | 1 | 1 |
| NGORONGORO CRATER | 608 | 2 | 2 |
| NIARI | 61 555 | 5 | 3 |
| NILE | 180 398 | 22 | 6 |
| NIPIODE | 9 806 | 1 | 1 |
| NUMEROUS SMALL PANS | 430 | 1 | 1 |
| NYANGA | 10 064 | 2 | 2 |
| OGOOUE | 63 843 | 13 | 4 |
| OKAVANGO DELTA | 694 686 | 50 | 10 |
| OLIFANTS | 47218 | 11 | 4 |
| OMARURU | 12 503 | 1 | 1 |
| ORANGE | 977 553 | 145 | 23 |
| PANGANI | 34 833 | 7 | 5 |
| PUNGOE | 32 126 | 7 | 5 |
| ROVUMA (Ruvuma) | 153 796 | 16 | 6 |
| RUFIJI | 183 208 | 22 | 7 |
| RUTSHURU | 7 466 | 2 | 2 |
| SAVE | 105 812 | 14 | 5 |
| SEMBO | 4 474 | 1 | 1 |
| SONDAGS | 21 467 | 1 | 1 |
| SONGA | 6 252 | 1 | 1 |
| SWAKOP | 30 536 | 3 | 2 |
| TANA | 62 764 | 6 | 2 |
| TSARIS | 8 197 | 1 | 1 |
| TSAUCHAB (pan) | 7 554 | 1 | 1 |
| TSONDAB | 8 932 | 1 | 1 |
| TUGELA | 29 323 | 3 | 2 |
| UGAB | 29 930 | 1 | 1 |
| UMBA | 8 388 | 1 | 1 |
| UMZIMVUBU | 18 981 | 2 | 2 |
| UNIAB | 4 893 | 1 | 1 |
| WAMI | 41 441 | 6 | 5 |
| ZAIRE | 2233 479 | 294 | 39 |
| ZAMBEZI | 1374 030 | 168 | 26 |
| Total | 8899 145 | 1157 | 39 |
