Statistics on modern & ancestral genomes
Genomicus 90.01 contains 1613382 genes from 87 extant species.
This data was analysed with a new method called AGORA (Algorithm for Gene Order Reconstruction in Ancestors; Muffato et al. in preparation) to identify 1399291 ancestral genes from 72 ancestral species, grouped into 35888 blocks of collinear genes.
The following tables present statistics on the data used in Genomicus, and on the reconstructed blocks in the ancestral species.
- For extant species, a "contig" means a segment of the genome sequence assembly (chromosomes, scaffolds, contig) with at least two genes.
- The average block length, the N25, N50 and N75 values do not take into account the singletons (blocks of one gene).
| |
| Primates |
Age |
Genes |
Contigs |
Average size
(nb genes) |
N50 size
(nb genes) |
Genes not
in contigs |
Coverage
(%) |
| Human | (extant sp.) | 22143 | 245 | 90.1 | 896 | 70 | 99.7% |
| Olive baboon | (extant sp.) | 19210 | 109 | 173.8 | 1012 | 262 | 98.6% |
| Orangutan | (extant sp.) | 20424 | 53 | 385.4 | 843 | 0 | 100.0% |
| Rhesus | (extant sp.) | 21099 | 58 | 356.9 | 1118 | 400 | 98.1% |
| Gorilla | (extant sp.) | 20962 | 27 | 776.4 | 1016 | 0 | 100.0% |
| Gibbon | (extant sp.) | 18575 | 394 | 46.5 | 126 | 268 | 98.6% |
| Tarsier | (extant sp.) | 13628 | 1540 | 2.3 | 2 | 10150 | 25.5% |
| Mouse lemur | (extant sp.) | 18103 | 894 | 20.0 | 43 | 232 | 98.7% |
| Vervet Monkey | (extant sp.) | 19165 | 54 | 353.7 | 696 | 65 | 99.7% |
| Bushbaby | (extant sp.) | 19506 | 374 | 51.8 | 115 | 151 | 99.2% |
| Marmoset | (extant sp.) | 20978 | 123 | 166.1 | 1061 | 543 | 97.4% |
| Chimpanzee | (extant sp.) | 18759 | 61 | 304.4 | 803 | 192 | 99.0% |
| |
| Rodents etc. |
Age |
Genes |
Contigs |
Average size
(nb genes) |
N50 size
(nb genes) |
Genes not
in contigs |
Coverage
(%) |
| Chinese hamster Crigri | (extant sp.) | 19617 | 1997 | 9.3 | 16 | 1134 | 94.2% |
| Degu | (extant sp.) | 19982 | 396 | 50.1 | 113 | 130 | 99.3% |
| Naked mole-rat female | (extant sp.) | 20774 | 274 | 75.5 | 158 | 92 | 99.6% |
| Rat | (extant sp.) | 22245 | 55 | 403.0 | 1311 | 78 | 99.6% |
| Kangaroo rat | (extant sp.) | 16911 | 289 | 57.7 | 108 | 239 | 98.6% |
| Shrew mouse | (extant sp.) | 19062 | 24 | 794.2 | 925 | 0 | 100.0% |
| Prairie vole | (extant sp.) | 19130 | 192 | 99.1 | 484 | 97 | 99.5% |
| Pika | (extant sp.) | 16006 | 3010 | 3.9 | 4 | 4397 | 72.5% |
| Ryukyu mouse | (extant sp.) | 19210 | 20 | 960.5 | 965 | 0 | 100.0% |
| Squirrel | (extant sp.) | 18474 | 486 | 37.6 | 90 | 212 | 98.9% |
| Chinese hamster CHOK1GS | (extant sp.) | 20824 | 130 | 159.1 | 606 | 146 | 99.3% |
| Upper Galilee mountains blind mole rat | (extant sp.) | 18647 | 1079 | 17.0 | 30 | 354 | 98.1% |
| Mouse | (extant sp.) | 22143 | 68 | 325.5 | 1108 | 9 | 100.0% |
| Tree shrew | (extant sp.) | 15471 | 3162 | 3.3 | 4 | 5087 | 67.1% |
| Northern American deer mouse | (extant sp.) | 19854 | 1025 | 19.0 | 39 | 399 | 98.0% |
| Naked mole-rat male | (extant sp.) | 20742 | 1965 | 10.2 | 18 | 714 | 96.6% |
| Long-tailed chinchilla | (extant sp.) | 17809 | 212 | 83.7 | 154 | 69 | 99.6% |
| spretus | (extant sp.) | 19477 | 20 | 973.9 | 1045 | 0 | 100.0% |
| Golden Hamster | (extant sp.) | 18257 | 312 | 57.0 | 110 | 465 | 97.5% |
| Brazilian-Guinea pig | (extant sp.) | 14218 | 235 | 60.4 | 182 | 35 | 99.8% |
| Lesser Egyptian jerboa | (extant sp.) | 17845 | 238 | 74.7 | 128 | 77 | 99.6% |
| Rabbit | (extant sp.) | 19293 | 581 | 32.4 | 678 | 472 | 97.6% |
| Guinea pig | (extant sp.) | 18095 | 258 | 69.9 | 214 | 61 | 99.7% |
| Damara mole rat | (extant sp.) | 17730 | 728 | 24.1 | 50 | 202 | 98.9% |
| |
| Laurasiatherias |
Age |
Genes |
Contigs |
Average size
(nb genes) |
N50 size
(nb genes) |
Genes not
in contigs |
Coverage
(%) |
| Hedgehog | (extant sp.) | 14601 | 2105 | 2.4 | 2 | 9606 | 34.2% |
| Microbat | (extant sp.) | 19728 | 1249 | 14.9 | 39 | 1169 | 94.1% |
| Pig | (extant sp.) | 22342 | 194 | 114.5 | 1282 | 127 | 99.4% |
| Horse | (extant sp.) | 20449 | 60 | 340.1 | 750 | 46 | 99.8% |
| Cat | (extant sp.) | 19493 | 42 | 459.8 | 1091 | 183 | 99.1% |
| Sheep | (extant sp.) | 20921 | 117 | 174.0 | 870 | 564 | 97.3% |
| Dog | (extant sp.) | 19856 | 81 | 243.3 | 606 | 152 | 99.2% |
| Cow | (extant sp.) | 19994 | 32 | 624.5 | 779 | 11 | 99.9% |
| Dolphin | (extant sp.) | 16550 | 3179 | 4.4 | 5 | 2472 | 85.1% |
| Alpaca | (extant sp.) | 11765 | 2006 | 4.4 | 5 | 2999 | 74.5% |
| Giant Panda | (extant sp.) | 19343 | 1819 | 10.2 | 18 | 799 | 95.9% |
| Ferret | (extant sp.) | 19910 | 503 | 39.0 | 96 | 276 | 98.6% |
| Megabat | (extant sp.) | 16990 | 3187 | 4.3 | 5 | 3198 | 81.2% |
| Common shrew | (extant sp.) | 13187 | 1965 | 2.7 | 3 | 7946 | 39.7% |
| |
| Xenarthras etc. |
Age |
Genes |
Contigs |
Average size
(nb genes) |
N50 size
(nb genes) |
Genes not
in contigs |
Coverage
(%) |
| Sloth | (extant sp.) | 12393 | 1181 | 2.2 | 2 | 9778 | 21.1% |
| Armadillo | (extant sp.) | 22711 | 2554 | 8.3 | 13 | 1448 | 93.6% |
| |
| Afrotherias etc. |
Age |
Genes |
Contigs |
Average size
(nb genes) |
N50 size
(nb genes) |
Genes not
in contigs |
Coverage
(%) |
| Hyrax | (extant sp.) | 16057 | 2834 | 2.9 | 3 | 7783 | 51.5% |
| Elephant | (extant sp.) | 20033 | 355 | 55.8 | 230 | 228 | 98.9% |
| Tenrec | (extant sp.) | 16575 | 2559 | 2.6 | 2 | 10047 | 39.4% |
| |
| Marsupials & Monotremes |
Age |
Genes |
Contigs |
Average size
(nb genes) |
N50 size
(nb genes) |
Genes not
in contigs |
Coverage
(%) |
| Opossum | (extant sp.) | 21327 | 11 | 1938.8 | 2870 | 0 | 100.0% |
| Platypus | (extant sp.) | 21698 | 1855 | 6.8 | 22 | 9138 | 57.9% |
| Wallaby | (extant sp.) | 15290 | 1720 | 2.4 | 2 | 11119 | 27.3% |
| Tasmanian devil | (extant sp.) | 18788 | 1966 | 8.7 | 15 | 1654 | 91.2% |
| |
| Birds & Reptiles |
Age |
Genes |
Contigs |
Average size
(nb genes) |
N50 size
(nb genes) |
Genes not
in contigs |
Coverage
(%) |
| Turkey | (extant sp.) | 14123 | 140 | 97.2 | 505 | 510 | 96.4% |
| Duck | (extant sp.) | 15634 | 1381 | 10.5 | 17 | 1135 | 92.7% |
| Lizard | (extant sp.) | 18595 | 1055 | 16.3 | 868 | 1370 | 92.6% |
| Chinese turtle | (extant sp.) | 18189 | 1467 | 11.9 | 23 | 726 | 96.0% |
| Chicken | (extant sp.) | 18346 | 510 | 33.3 | 517 | 1387 | 92.4% |
| Zebra finch | (extant sp.) | 17488 | 68 | 257.2 | 712 | 1 | 100.0% |
| Flycatcher | (extant sp.) | 15303 | 491 | 30.5 | 92 | 334 | 97.8% |
| |
| Amphibians |
Age |
Genes |
Contigs |
Average size
(nb genes) |
N50 size
(nb genes) |
Genes not
in contigs |
Coverage
(%) |
| Frog | (extant sp.) | 18442 | 1339 | 13.1 | 23 | 902 | 95.1% |
| |
| Fish |
Age |
Genes |
Contigs |
Average size
(nb genes) |
N50 size
(nb genes) |
Genes not
in contigs |
Coverage
(%) |
| Tetraodon | (extant sp.) | 19602 | 27 | 726.0 | 767 | 0 | 100.0% |
| Spotted gar | (extant sp.) | 18341 | 186 | 96.8 | 773 | 332 | 98.2% |
| Amazon molly | (extant sp.) | 23615 | 997 | 23.2 | 52 | 509 | 97.8% |
| Atlantic cod | (extant sp.) | 20095 | 2716 | 6.4 | 10 | 2663 | 86.7% |
| Zebrafish | (extant sp.) | 25728 | 103 | 247.7 | 1004 | 220 | 99.1% |
| Medaka | (extant sp.) | 19699 | 331 | 57.8 | 741 | 556 | 97.2% |
| Tilapia | (extant sp.) | 21437 | 613 | 34.2 | 88 | 468 | 97.8% |
| Fugu | (extant sp.) | 18523 | 853 | 20.5 | 52 | 1077 | 94.2% |
| Cave fish | (extant sp.) | 23042 | 1367 | 15.9 | 37 | 1277 | 94.5% |
| Stickleback | (extant sp.) | 20787 | 261 | 78.5 | 869 | 299 | 98.6% |
| Platyfish | (extant sp.) | 20379 | 1244 | 15.4 | 44 | 1218 | 94.0% |
| |
| Other chordates |
Age |
Genes |
Contigs |
Average size
(nb genes) |
N50 size
(nb genes) |
Genes not
in contigs |
Coverage
(%) |
| Ciona savignyi | (extant sp.) | 11616 | 285 | 40.6 | 143 | 59 | 99.5% |
| Lamprey | (extant sp.) | 10415 | 1844 | 3.6 | 4 | 3826 | 63.3% |
| Coelacanth | (extant sp.) | 19569 | 2510 | 7.2 | 11 | 1464 | 92.5% |
| Ciona intestinalis | (extant sp.) | 16671 | 484 | 33.9 | 816 | 249 | 98.5% |
| |
| Other eukaryotes |
Age |
Genes |
Contigs |
Average size
(nb genes) |
N50 size
(nb genes) |
Genes not
in contigs |
Coverage
(%) |
| Yeast | (extant sp.) | 6692 | 17 | 393.6 | 513 | 0 | 100.0% |
| Caenorhabditis elegans | (extant sp.) | 20362 | 7 | 2908.9 | 3313 | 0 | 100.0% |
| Fruitfly | (extant sp.) | 13918 | 9 | 1546.1 | 2734 | 3 | 100.0% |
| |
| Ancestors in Primates |
Age |
Genes |
Blocks |
Average size
(nb genes) |
N50 size
(nb genes) |
Genes not
in blocks |
Coverage
(%) |
| Cercopithecinae | ~11 My | 22144 | 156 | 125.4 | 765 | 2581 | 88.3% |
| Primates | ~83 My | 21913 | 117 | 163.0 | 711 | 2847 | 87.0% |
| Haplorrhini | ~57 My | 21430 | 166 | 113.6 | 537 | 2576 | 88.0% |
| Simiiformes | ~45 My | 22077 | 164 | 117.1 | 666 | 2877 | 87.0% |
| Catarrhini | ~31 My | 22894 | 145 | 136.3 | 854 | 3126 | 86.3% |
| Hominidae | ~16 My | 22710 | 174 | 115.1 | 789 | 2676 | 88.2% |
| Homo/Pan group | ~5 My | 20415 | 102 | 188.8 | 806 | 1156 | 94.3% |
| Hominoidea | ~25 My | 22235 | 150 | 131.8 | 747 | 2470 | 88.9% |
| Homo/Pan/Gorilla group | ~9 My | 22205 | 140 | 142.3 | 765 | 2278 | 89.7% |
| Strepsirrhini | ~69 My | 19210 | 242 | 74.1 | 194 | 1276 | 93.4% |
| |
| Ancestors in Rodents etc. |
Age |
Genes |
Blocks |
Average size
(nb genes) |
N50 size
(nb genes) |
Genes not
in blocks |
Coverage
(%) |
| Glires | ~81 My | 21555 | 128 | 147.0 | 670 | 2741 | 87.3% |
| Myomorpha | ~51 My | 20688 | 151 | 122.3 | 466 | 2220 | 89.3% |
| Murinae | ~20 My | 20717 | 161 | 119.9 | 641 | 1411 | 93.2% |
| Hystricognathi | ~42 My | 20418 | 207 | 87.6 | 351 | 2286 | 88.8% |
| Mus | ~7 My | 20736 | 108 | 179.9 | 908 | 1303 | 93.7% |
| Rodentia | ~80 My | 21500 | 127 | 147.6 | 617 | 2756 | 87.2% |
| Mus_B | ~2 My | 21102 | 95 | 209.1 | 1021 | 1237 | 94.1% |
| Cricetidae | ~20 My | 20897 | 131 | 145.3 | 576 | 1869 | 91.1% |
| Cavia | ~4 My | 18054 | 316 | 54.5 | 204 | 823 | 95.4% |
| Lagomorpha | ~48 My | 18274 | 749 | 22.2 | 114 | 1640 | 91.0% |
| Cricetidae_B | ~18 My | 19411 | 247 | 73.7 | 238 | 1212 | 93.8% |
| Muroidea | ~44 My | 21676 | 134 | 143.6 | 745 | 2434 | 88.8% |
| Mus_A | ~6 My | 21055 | 111 | 177.7 | 1013 | 1329 | 93.7% |
| Bathyergidae | ~33 My | 19500 | 291 | 60.7 | 178 | 1846 | 90.5% |
| Hystricomorpha_A | ~32 My | 18720 | 203 | 85.0 | 187 | 1470 | 92.1% |
| Hystricomorpha | ~10 My | 19626 | 170 | 104.3 | 315 | 1891 | 90.4% |
| Cricetulus griseus | (extant sp.) | 20965 | 214 | 91.8 | 326 | 1322 | 93.7% |
| Sciurognathi | ~79 My | 21041 | 134 | 138.9 | 598 | 2422 | 88.5% |
| Cricetinae | ~10 My | 20397 | 143 | 132.0 | 637 | 1517 | 92.6% |
| Heterocephalus glaber | (extant sp.) | 21437 | 608 | 31.6 | 103 | 2217 | 89.7% |
| |
| Ancestors in Laurasiatherias |
Age |
Genes |
Blocks |
Average size
(nb genes) |
N50 size
(nb genes) |
Genes not
in blocks |
Coverage
(%) |
| Insectivora | ~68 My | 15766 | 2645 | 2.7 | 3 | 8678 | 45.0% |
| Bovidae | ~30 My | 20363 | 176 | 106.9 | 533 | 1555 | 92.4% |
| Carnivora | ~56 My | 20530 | 101 | 184.7 | 663 | 1874 | 90.9% |
| Caniformia | ~44 My | 20172 | 131 | 141.4 | 586 | 1650 | 91.8% |
| Chiroptera | ~60 My | 18602 | 1141 | 14.9 | 36 | 1655 | 91.1% |
| Caniformia_b | ~44 My | 19574 | 392 | 46.6 | 129 | 1324 | 93.2% |
| Cetartiodactyla | ~61 My | 21359 | 189 | 100.9 | 572 | 2298 | 89.2% |
| Laurasiatheria | ~88 My | 22807 | 117 | 166.1 | 1023 | 3376 | 85.2% |
| |
| Ancestors in mammals |
Age |
Genes |
Blocks |
Average size
(nb genes) |
N50 size
(nb genes) |
Genes not
in blocks |
Coverage
(%) |
| Theria | ~166 My | 20773 | 346 | 49.8 | 313 | 3536 | 83.0% |
| Euarchontoglires | ~90 My | 23260 | 123 | 157.7 | 855 | 3866 | 83.4% |
| Marsupialia | ~148 My | 19435 | 549 | 30.9 | 104 | 2454 | 87.4% |
| Boreoeutheria | ~95 My | 23657 | 139 | 139.4 | 936 | 4274 | 81.9% |
| Diprotodontia | ~65 My | 18381 | 1786 | 8.4 | 14 | 3452 | 81.2% |
| Eutheria | ~102 My | 22842 | 214 | 87.5 | 645 | 4126 | 81.9% |
| Afrotheria | ~94 My | 19442 | 407 | 43.1 | 139 | 1881 | 90.3% |
| Xenarthra | ~64 My | 18934 | 2097 | 7.7 | 12 | 2796 | 85.2% |
| Atlantogenata | ~100 My | 20731 | 335 | 54.9 | 234 | 2343 | 88.7% |
| Mammalia | ~184 My | 20286 | 673 | 24.1 | 104 | 4055 | 80.0% |
| |
| Ancestors in fish |
Age |
Genes |
Blocks |
Average size
(nb genes) |
N50 size
(nb genes) |
Genes not
in blocks |
Coverage
(%) |
| Poeciliinae | ~100 My | 21687 | 634 | 31.1 | 118 | 1942 | 91.0% |
| Atherinomorphae | ~100 My | 21782 | 451 | 43.3 | 540 | 2254 | 89.7% |
| Percomorphaceae | ~125 My | 22900 | 427 | 46.4 | 597 | 3066 | 86.6% |
| Tetraodontidae | ~70 My | 19175 | 635 | 26.8 | 273 | 2176 | 88.7% |
| Ovalentaria | ~103 My | 22344 | 370 | 53.6 | 581 | 2529 | 88.7% |
| Clupeocephala | ~300 My | 23193 | 2024 | 9.1 | 17 | 4744 | 79.5% |
| Acanthomorphata | ~165 My | 22616 | 1640 | 11.4 | 27 | 3873 | 82.9% |
| Eupercaria | ~125 My | 21035 | 447 | 42.4 | 390 | 2100 | 90.0% |
| Otophysi | ~150 My | 22726 | 1619 | 12.0 | 24 | 3313 | 85.4% |
| |
| Ancestors in vertebrates |
Age |
Genes |
Blocks |
Average size
(nb genes) |
N50 size
(nb genes) |
Genes not
in blocks |
Coverage
(%) |
| Euteleostomi | ~420 My | 19855 | 2261 | 6.0 | 9 | 6202 | 68.8% |
| Neopterygii | ~330 My | 19825 | 1470 | 10.5 | 22 | 4436 | 77.6% |
| Passeriformes | ~45 My | 15528 | 241 | 57.9 | 291 | 1563 | 89.9% |
| Vertebrata | ~550 My | 13514 | 540 | 2.2 | 2 | 12305 | 8.9% |
| Sarcopterygii | ~400 My | 19613 | 1526 | 9.8 | 19 | 4642 | 76.3% |
| Chordata | ~550 My | 10202 | 166 | 2.1 | 2 | 9851 | 3.4% |
| Ciona | ~100 My | 10886 | 1521 | 3.4 | 4 | 5666 | 48.0% |
| Galloanserae | ~81 My | 16401 | 265 | 55.6 | 324 | 1658 | 89.9% |
| Galliformes | ~45 My | 15713 | 210 | 68.6 | 383 | 1300 | 91.7% |
| Sauria | ~267 My | 18575 | 455 | 34.9 | 268 | 2695 | 85.5% |
| Neognathae | ~105 My | 16782 | 238 | 62.0 | 406 | 2030 | 87.9% |
| Amniota | ~326 My | 20299 | 456 | 35.4 | 246 | 4152 | 79.5% |
| Archelosauria | ~250 My | 17694 | 393 | 39.1 | 262 | 2325 | 86.9% |
| Tetrapoda | ~359 My | 19488 | 1027 | 14.8 | 38 | 4244 | 78.2% |
| |
| Other ancestors |
Age |
Genes |
Blocks |
Average size
(nb genes) |
N50 size
(nb genes) |
Genes not
in blocks |
Coverage
(%) |
| Bilateria | ~580 My | 8153 | 66 | 2.2 | 2 | 8011 | 1.7% |
| Fungi/Metazoa group | ~1500 My | 2268 | 30 | 2.0 | 2 | 2207 | 2.7% |
| Ecdysozoa | ~580 My | 7523 | 53 | 2.1 | 2 | 7411 | 1.5% |
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