| Scientific Name | Common Name | Reads |
|---|---|---|
| Ajellomyces capsulatus | None | 26388 |
| Alternaria alternata | None | 6253 |
| Alternaria brassicicola | None | 4297 |
| Ancylostoma caninum | Dog hookworm-Clade V | 79287 |
| Ancylostoma ceylanicum | Human and hamster hookworm-Clade V | 10590 |
| Anolis sagrei | Green anole (lizard) | 5098 |
| Ascaris suum | Pig roundworm-Clade III | 46402 |
| Biomphalaria glabrata | None | 41613 |
| Blastomyces dermatitidis | None | 14342 |
| Brugia malayi | Lymphatic filarial worm-Clade III | 7854 |
| Caenorhabditis briggsae | Nematode, Clade V | 2424 |
| Caenorhabditis elegans | The elegant worm-Clade V | 393 |
| Caenorhabditis japonica | Nematode-Clade V | 31367 |
| Caenorhabditis remanei | Nematode-Clade V | 20289 |
| Caenorhabditis sp. 4 (CE-II) | Nematode-Clade V | 28131 |
| Canis familiaris | Domestic dog | 14770 |
| Ceratodon purpureus | Fire moss | 1677 |
| Crepis alpina | Hawks beard | 6529 |
| Danio rerio | Zebrafish | 223000 |
| Dirofilaria immitis | Dog heartworm-Clade III | 4005 |
| Ditylenchus africanus | None | 4847 |
| Drosophila simulans | Fruitfly | 3846 |
| Drosophila yakuba | Fruitfly | 10236 |
| Eimeria tenella | None | 27499 |
| Gallus gallus | Red junglefowl | 2123 |
| Globodera pallida | Potato cyst nematode or golden nematode-Clade IVb | 2546 |
| Globodera rostochiensis | Potato cyst nematode or golden nematode-Clade IVb | 10946 |
| Glycine max | Soybean | 264290 |
| Glycine soja | Soybean | 16508 |
| Gregarina niphandrodes | None | 3454 |
| Haemonchus contortus | Barber's pole worm, stomach worm, wireworm-Clade V | 14014 |
| Heterodera glycines | Soybean cyst nematode-Clade IVb | 20109 |
| Heterodera schachtii | Sugar beet cyst nematode-Clade IVb | 2804 |
| Heterorhabditis bacteriophora | None | 41883 |
| Homo sapiens | Human | 1712982 |
| Hydra magnipapillata | None (Hydroid) | 165370 |
| Hydra oligactis | None (Hydroid) | 1022 |
| Hydra vulgaris | None (Hydroid) | 5452 |
| Hydractinia echinata | None (Hydroid) | 11890 |
| Litopanaeus vannamei | None | 11103 |
| Malus hybrid rootstock | Crabapple | 321 |
| Malus x domestica | Domestic apple | 2263039 |
| Malus x domestica x Malus sieversii | Wild apple | 3944 |
| Manihot esculenta | Cassava | 844 |
| Meloidogyne arenaria | Root knot nematode-Clade IVb | 5018 |
| Meloidogyne chitwoodi | Root knot nematode-Clade IVb | 12218 |
| Meloidogyne hapla | Northern root knot nematode-Clade IVb | 24452 |
| Meloidogyne incognita | Root knot nematode-Clade IVb | 19000 |
| Meloidogyne javanica | Root knot nematode-Clade IVb | 7565 |
| Meloidogyne paranaensis | Coffee root knot nematode-Clade IVb | 3710 |
| Mus musculus | House mouse | 683278 |
| Neospora caninum | None | 24875 |
| Neospora hughesi | None | 1888 |
| Nippostrongylus brasiliensis | Rat intestinal nematode-Clade V | 13452 |
| Onchocerca flexuosa | None | 2124 |
| Onchocerca ochengi | African river blindness nematode-Clade III | 60 |
| Onchocerca volvulus | African river blindness nematode-Clade III | 2397 |
| Ornithorhynchus anatinus | Platypus | 8573 |
| Ostertagia ostertagi | Brown stomach worm of cattle-Clade V | 6557 |
| Oxytricha trifallax | None | 5717 |
| Parastrongyloides trichosuri | None-Clade IVa | 7963 |
| Petromyzon marinus | Sea Lamprey | 80225 |
| Phlebotomus papatasi | None | 38338 |
| Physcomitrella patens | Moss | 19538 |
| Plasmodium falciparum 3D7 | Malarial parasite | 17686 |
| Podocoryne carnea | Jellyfish | 827 |
| Pratylenchus penetrans | Lesion nematode; Meadow nematode-Clade IVb | 1928 |
| Pratylenchus vulnus | Walnut root-lesion nematode-Clade IVb | 2485 |
| Priapulus caudatus | None | 1803 |
| Pristionchus pacificus | None-Clade V | 25110 |
| Radopholus similis | Burrowing nematode of bananas-Clade IVb | 2152 |
| Rattus norvegicus | Norway rat | 524 |
| Rhodnius prolixus | None | 8662 |
| Ricinus communis | Castor bean | 329 |
| Sarcocystis falcatula | None | 6332 |
| Sarcocystis neurona | None | 15329 |
| Schmidtea mediterranea | Planarian | 46421 |
| Strongylocentrotus purpuratus | Purple sea urchin | 36522 |
| Strongyloides ratti | None-Clade IVa | 14761 |
| Strongyloides stercoralis | Threadworm-Clade IVa | 11335 |
| Takifugu rubripes | Japanese pufferfish | 34203 |
| Toxocara canis | Canine roundworm-Clade III | 4370 |
| Toxoplasma gondii | None | 125426 |
| Trichinella spiralis | Trichina worm-Clade I | 25049 |
| Trichuris muris | None | 4388 |
| Trichuris vulpis | Whipworm-Clade I | 3063 |
| Wuchereria bancrofti | Filarial worm-Clade III | 3156 |
| Xenopus laevis | African clawed frog | 107766 |
| Xenopus tropicalis | Western clawed frog | 6632 |
| Xiphinema index | Dagger nematode-Clade I | 8424 |
| Zeldia punctata | None-Clade IVb | 391 |