| Aegilops tauschii | Aegilops tauschii (Tausch's goatgrass) | 258680 | 258911 | 0 | 0 |
| Amborella trichopoda | Amborella trichopoda (Amborella) | 27313 | 27313 | 490 | 0 |
| Arabidopsis lyrata | Arabidopsis lyrata (lyrate rockcress) | 32667 | 32667 | 20630 | 21310 |
| Arabidopsis thaliana | Arabidopsis thaliana (thale-cress) | 48321 | 48359 | 42715 | 42322 |
| Beta vulgaris | Beta vulgaris | 28721 | 28721 | 27224 | 26648 |
| Brachypodium distachyon | Brachypodium distachyon (purple false brome) | 52972 | 52972 | 38290 | 40119 |
| Brassica napus | Brassica napus | 101040 | 101040 | 0 | 0 |
| Brassica oleracea | Brassica oleracea | 59220 | 59225 | 0 | 0 |
| Brassica rapa | Brassica rapa (field mustard) | 41025 | 41025 | 0 | 0 |
| Chlamydomonas reinhardtii | Chlamydomonas reinhardtii (a green algae) | 19528 | 19528 | 18970 | 18968 |
| Chondrus crispus | Chondrus crispus | 9807 | 9807 | 465 | 3377 |
| Cyanidioschyzon merolae | Cyanidioschyzon merolae (a red algae) | 4973 | 4984 | 0 | 4463 |
| Galdieria sulphuraria | Galdieria sulphuraria | 7174 | 7174 | 6981 | 6940 |
| Glycine max | Glycine max (soybean) | 88412 | 88412 | 0 | 0 |
| Hordeum vulgare | Hordeum vulgare (Barley) | 37961 | 37962 | 17024 | 18575 |
| Leersia perrieri | Leersia perrieri (Leersia) | 38960 | 38961 | 13298 | 16172 |
| Medicago truncatula | Medicago truncatula str. A17 (barrel medic) | 57585 | 57585 | 25349 | 26056 |
| Musa acuminata | Musa acuminata (banana) | 45589 | 45855 | 36768 | 37506 |
| Oryza barthii | Oryza barthii (African wild rice) | 41595 | 41595 | 12085 | 15067 |
| Oryza brachyantha | Oryza brachyantha | 32037 | 32038 | 6471 | 11625 |
| Oryza glaberrima | Oryza glaberrima (African rice) | 33164 | 33164 | 0 | 0 |
| Oryza glumaepatula | Oryza glumaepatula | 46893 | 46893 | 15250 | 17618 |
| Oryza longistaminata | Oryza longistaminata | 31686 | 31686 | 0 | 0 |
| Oryza meridionalis | Oryza meridionalis | 43455 | 43455 | 24191 | 24804 |
| Oryza nivara | Oryza nivara | 48360 | 48360 | 15407 | 18654 |
| Oryza punctata | Oryza punctata | 41060 | 41060 | 13132 | 16190 |
| Oryza rufipogon | Oryza rufipogon (common wild rice) | 47441 | 47456 | 14502 | 17633 |
| Oryza indica | Oryza sativa Indica (Indica rice) | 40745 | 40745 | 0 | 0 |
| Oryza sativa | Oryza sativa Japonica (Japonica rice) | 42355 | 44761 | 34896 | 35568 |
| Ostreococcus lucimarinus | Ostreococcus lucimarinus (a green algae) | 7603 | 7536 | 989 | 1183 |
| Physcomitrella patens | Physcomitrella patens (a moss) | 38354 | 38354 | 18179 | 19040 |
| Populus trichocarpa | Populus trichocarpa (western balsam poplar) | 73012 | 73012 | 0 | 0 |
| Prunus persica | Prunus persica (peach) | 47089 | 47089 | 34996 | 35970 |
| Selaginella moellendorffii | Selaginella moellendorffii (a spike moss) | 34825 | 34891 | 4315 | 6380 |
| Setaria italica | Setaria italica (foxtail millet) | 41023 | 41023 | 19220 | 24568 |
| Solanum lycopersicum | Solanum lycopersicum str. Heinz 1706 | 34429 | 34658 | 16706 | 17227 |
| Solanum tuberosum | Solanum tuberosum (potato) | 56210 | 56210 | 37476 | 37503 |
| Sorghum bicolor | Sorghum bicolor (sorghum) | 47110 | 47110 | 34257 | 36391 |
| Theobroma cacao | Theobroma cacao (cocoa) | 44186 | 44186 | 0 | 0 |
| Trifolium pratense | Trifolium pratense | 41270 | 41302 | 38805 | 36837 |
| Triticum aestivum | Triticum aestivum (bread wheat) | 133346 | 133744 | 0 | 0 |
| Triticum urartu | Triticum urartu (an einkorn) | 61696 | 61773 | 57211 | 52593 |
| Vitis vinifera | Vitis vinifera (wine grape) | 41097 | 41097 | 17017 | 17872 |
| Zea mays | Zea mays (maize) | 72539 | 72539 | 0 | 0 |