| Genus/Species | Common Name | ESTs | Contigs |
|---|
| Acropora palmata | Elkhorn Coral | 5,410 | 306 |
| Anas platyrhynchos | Mallard Duck | 146 | 6 |
| Argopecten irradians | Atlantic Bay Scallop | 2,428 | 185 |
| Calanus finmarchicus | Calanus finmarchicus (Zooplankton) | 278 | 28 |
| Callinectes sapidus | Blue Crab | 1,733 | 190 |
| Crassostrea gigas | Pacific Oyster | 4,319 | 669 |
| Crassostrea virginica | Eastern Oyster | 6,146 | 714 |
| Dasyatis sabina | Atlantic Stingray | 16 | 0 |
| Eubalaena glacialis | North Atlantic Right Whale | 2,343 | 209 |
| Farfantepenaeus californiensis | Brown Shrimp | 0 | 0 |
| Fundulus genus | Fundulus Genus | 1,998 | 0 |
| Homarus americanus | American Lobster | 4,900 | 677 |
| Karenia brevis | Karenia brevis (toxic dinoflagellate) | 65,292 | 22,671 |
| Leucoraja erinacea | Little Skate | 6,317 | 860 |
| Litopenaeus setiferus | Atlantic White Shrimp | 965 | 110 |
| Litopenaeus stylirostris | Blue Shrimp | 199 | 23 |
| Litopenaeus vannamei | Pacific White Shrimp | 176,198 | 14,548 |
| Montastraea annularis | Lobed Star Coral | 4,781 | 486 |
| Montastraea faveolata | Montastrea faveolata (Coral) | 1,800 | 93 |
| Oculina varicosa | Ivory Tree Coral | 333 | 31 |
| Oreochromis mossambicus | Mozambique Mouthbrooder | 2,040 | 176 |
| Palaemonetes pugio | Grass Shrimp | 8,438 | 1,206 |
| Paralithodes camtschaticus | Red King Crab | 371 | 16 |
| Penaeus monodon | Tiger Prawn | 329 | 45 |
| Porites astreoides | Mustard hill coral | 11,516 | 2,058 |
| Porites porites | Finger Coral | 239 | 31 |
| Squalus acanthias | Spiny Dogfish | 4,003 | 880 |
| Tursiops truncatus | Bottlenose Dolphin | 2,228 | 203 |
| | 314,766 | 46,421 |
