Statistics on modern & ancestral genomes
Genomicus 68.02 contains 1050481 genes from 59 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 890477 ancestral genes from 49 ancestral species, grouped into 30199 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.) | 21961 | 128 | 171.3 | 898 | 39 | 99.8% |
| Orangutan | (extant sp.) | 20068 | 52 | 385.9 | 832 | 0 | 100.0% |
| Rhesus | (extant sp.) | 21905 | 90 | 236.1 | 1120 | 660 | 97.0% |
| Gibbon | (extant sp.) | 18161 | 386 | 46.5 | 123 | 215 | 98.8% |
| Tarsier | (extant sp.) | 13615 | 1539 | 2.3 | 2 | 10150 | 25.4% |
| Mouse lemur | (extant sp.) | 16319 | 3002 | 4.1 | 5 | 3927 | 75.9% |
| Gorilla | (extant sp.) | 20962 | 27 | 776.4 | 1016 | 0 | 100.0% |
| Chimpanzee | (extant sp.) | 18746 | 60 | 309.2 | 803 | 192 | 99.0% |
| Bushbaby | (extant sp.) | 19506 | 374 | 51.8 | 115 | 151 | 99.2% |
| Marmoset | (extant sp.) | 20993 | 124 | 164.8 | 1061 | 556 | 97.4% |
| |
| Rodents etc. |
Age |
Genes |
Contigs |
Average size
(nb genes) |
N50 size
(nb genes) |
Genes not
in contigs |
Coverage
(%) |
| Mouse | (extant sp.) | 22638 | 36 | 628.7 | 1158 | 5 | 100.0% |
| Rat | (extant sp.) | 22938 | 22 | 1042.6 | 1373 | 0 | 100.0% |
| Kangaroo rat | (extant sp.) | 15798 | 3124 | 2.9 | 3 | 6716 | 57.5% |
| Rabbit | (extant sp.) | 19018 | 565 | 32.9 | 666 | 457 | 97.6% |
| Tree shrew | (extant sp.) | 15458 | 3161 | 3.3 | 4 | 5087 | 67.1% |
| Guinea pig | (extant sp.) | 18673 | 276 | 67.3 | 215 | 97 | 99.5% |
| Squirrel | (extant sp.) | 18826 | 516 | 36.0 | 87 | 249 | 98.7% |
| Pika | (extant sp.) | 15993 | 3009 | 3.9 | 4 | 4397 | 72.5% |
| |
| Laurasiatherias |
Age |
Genes |
Contigs |
Average size
(nb genes) |
N50 size
(nb genes) |
Genes not
in contigs |
Coverage
(%) |
| Hedgehog | (extant sp.) | 14588 | 2104 | 2.4 | 2 | 9606 | 34.2% |
| Microbat | (extant sp.) | 19728 | 1249 | 14.9 | 39 | 1169 | 94.1% |
| Pig | (extant sp.) | 21640 | 461 | 45.0 | 1226 | 906 | 95.8% |
| Horse | (extant sp.) | 20436 | 59 | 345.6 | 750 | 46 | 99.8% |
| Cat | (extant sp.) | 15048 | 2694 | 4.1 | 5 | 4024 | 73.3% |
| 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.) | 16537 | 3178 | 4.4 | 5 | 2472 | 85.1% |
| Alpaca | (extant sp.) | 11752 | 2005 | 4.4 | 5 | 2999 | 74.5% |
| Giant Panda | (extant sp.) | 19343 | 1819 | 10.2 | 18 | 799 | 95.9% |
| 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.) | 14803 | 2586 | 2.7 | 3 | 7822 | 47.2% |
| |
| Afrotherias etc. |
Age |
Genes |
Contigs |
Average size
(nb genes) |
N50 size
(nb genes) |
Genes not
in contigs |
Coverage
(%) |
| Hyrax | (extant sp.) | 16044 | 2833 | 2.9 | 3 | 7783 | 51.5% |
| Elephant | (extant sp.) | 20033 | 355 | 55.8 | 230 | 228 | 98.9% |
| Tenrec | (extant sp.) | 16562 | 2558 | 2.5 | 2 | 10047 | 39.3% |
| |
| Marsupials & Monotremes |
Age |
Genes |
Contigs |
Average size
(nb genes) |
N50 size
(nb genes) |
Genes not
in contigs |
Coverage
(%) |
| Opossum | (extant sp.) | 19466 | 11 | 1769.6 | 2642 | 0 | 100.0% |
| Platypus | (extant sp.) | 17951 | 1483 | 7.6 | 27 | 6750 | 62.4% |
| Tasmanian harrisii | (extant sp.) | 18788 | 1966 | 8.7 | 15 | 1654 | 91.2% |
| Wallaby | (extant sp.) | 15290 | 1720 | 2.4 | 2 | 11119 | 27.3% |
| |
| Birds & Reptiles |
Age |
Genes |
Contigs |
Average size
(nb genes) |
N50 size
(nb genes) |
Genes not
in contigs |
Coverage
(%) |
| Zebra finch | (extant sp.) | 17488 | 68 | 257.2 | 712 | 1 | 100.0% |
| Chinese turtle | (extant sp.) | 18188 | 1467 | 11.9 | 23 | 726 | 96.0% |
| Lizard | (extant sp.) | 17805 | 1009 | 16.4 | 834 | 1302 | 92.7% |
| Chicken | (extant sp.) | 16736 | 48 | 348.6 | 734 | 4 | 100.0% |
| Turkey | (extant sp.) | 14125 | 140 | 97.2 | 505 | 512 | 96.4% |
| |
| Amphibians |
Age |
Genes |
Contigs |
Average size
(nb genes) |
N50 size
(nb genes) |
Genes not
in contigs |
Coverage
(%) |
| Frog | (extant sp.) | 18429 | 1338 | 13.1 | 23 | 902 | 95.1% |
| |
| Fish |
Age |
Genes |
Contigs |
Average size
(nb genes) |
N50 size
(nb genes) |
Genes not
in contigs |
Coverage
(%) |
| Fugu | (extant sp.) | 18523 | 853 | 20.5 | 52 | 1077 | 94.2% |
| Atlantic cod | (extant sp.) | 20095 | 2716 | 6.4 | 10 | 2663 | 86.7% |
| Zebrafish | (extant sp.) | 26203 | 178 | 145.6 | 1022 | 280 | 98.9% |
| Medaka | (extant sp.) | 19686 | 330 | 58.0 | 741 | 556 | 97.2% |
| Tilapia | (extant sp.) | 21437 | 613 | 34.2 | 88 | 468 | 97.8% |
| Stickleback | (extant sp.) | 20787 | 261 | 78.5 | 869 | 299 | 98.6% |
| Tetraodon | (extant sp.) | 19602 | 27 | 726.0 | 767 | 0 | 100.0% |
| |
| Other chordates |
Age |
Genes |
Contigs |
Average size
(nb genes) |
N50 size
(nb genes) |
Genes not
in contigs |
Coverage
(%) |
| Ciona savignyi | (extant sp.) | 11604 | 284 | 40.7 | 143 | 59 | 99.5% |
| Lamprey | (extant sp.) | 10402 | 1843 | 3.6 | 4 | 3826 | 63.2% |
| Coelacanth | (extant sp.) | 19567 | 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.) | 20517 | 7 | 2931.0 | 3326 | 0 | 100.0% |
| Fruitfly | (extant sp.) | 13917 | 14 | 994.1 | 2723 | 0 | 100.0% |
| |
| Ancestors in Primates |
Age |
Genes |
Blocks |
Average size
(nb genes) |
N50 size
(nb genes) |
Genes not
in blocks |
Coverage
(%) |
| Homo/Pan/Gorilla group | ~9 My | 21370 | 113 | 173.5 | 637 | 1763 | 91.8% |
| Primates | ~83 My | 21141 | 119 | 157.7 | 597 | 2372 | 88.8% |
| Haplorrhini | ~57 My | 20759 | 164 | 113.4 | 554 | 2164 | 89.6% |
| Simiiformes | ~45 My | 21406 | 149 | 127.0 | 636 | 2480 | 88.4% |
| Catarrhini | ~31 My | 21871 | 124 | 155.0 | 739 | 2647 | 87.9% |
| Hominidae | ~16 My | 21682 | 116 | 169.4 | 747 | 2033 | 90.6% |
| Homo/Pan group | ~5 My | 19918 | 84 | 227.0 | 753 | 846 | 95.8% |
| Hominoidea | ~25 My | 21482 | 134 | 144.8 | 732 | 2076 | 90.3% |
| Strepsirrhini | ~69 My | 18873 | 451 | 39.1 | 93 | 1245 | 93.4% |
| |
| Ancestors in Rodents etc. |
Age |
Genes |
Blocks |
Average size
(nb genes) |
N50 size
(nb genes) |
Genes not
in blocks |
Coverage
(%) |
| Rodentia | ~80 My | 19746 | 143 | 127.9 | 524 | 1461 | 92.6% |
| Sciurognathi | ~79 My | 19639 | 182 | 100.4 | 378 | 1374 | 93.0% |
| Murinae | ~37 My | 20173 | 158 | 119.2 | 510 | 1333 | 93.4% |
| Glires | ~81 My | 20195 | 139 | 132.8 | 596 | 1731 | 91.4% |
| Lagomorpha | ~48 My | 18014 | 714 | 23.2 | 133 | 1481 | 91.8% |
| |
| Ancestors in Laurasiatherias |
Age |
Genes |
Blocks |
Average size
(nb genes) |
N50 size
(nb genes) |
Genes not
in blocks |
Coverage
(%) |
| Insectivora | ~68 My | 15687 | 2633 | 2.7 | 3 | 8613 | 45.1% |
| Carnivora | ~56 My | 19595 | 229 | 79.2 | 231 | 1464 | 92.5% |
| Chiroptera | ~60 My | 18316 | 1154 | 14.6 | 36 | 1473 | 92.0% |
| Caniformia | ~44 My | 19248 | 196 | 92.1 | 293 | 1205 | 93.7% |
| Cetartiodactyla | ~61 My | 19923 | 245 | 74.9 | 327 | 1570 | 92.1% |
| Laurasiatheria | ~88 My | 21512 | 108 | 174.9 | 713 | 2626 | 87.8% |
| |
| Ancestors in mammals |
Age |
Genes |
Blocks |
Average size
(nb genes) |
N50 size
(nb genes) |
Genes not
in blocks |
Coverage
(%) |
| Boreoeutheria | ~95 My | 22360 | 124 | 152.6 | 946 | 3433 | 84.6% |
| Euarchontoglires | ~90 My | 21895 | 111 | 170.9 | 820 | 2928 | 86.6% |
| Diprotodontia | ~65 My | 18223 | 1774 | 8.3 | 14 | 3430 | 81.2% |
| Theria | ~166 My | 20130 | 315 | 53.9 | 260 | 3161 | 84.3% |
| Marsupialia | ~148 My | 18927 | 521 | 32.2 | 117 | 2131 | 88.7% |
| Eutheria | ~102 My | 21769 | 217 | 83.6 | 607 | 3628 | 83.3% |
| Afrotheria | ~94 My | 19222 | 414 | 42.1 | 113 | 1782 | 90.7% |
| Xenarthra | ~64 My | 15307 | 2600 | 2.7 | 3 | 8252 | 46.1% |
| Atlantogenata | ~100 My | 19594 | 406 | 43.1 | 122 | 2105 | 89.3% |
| Mammalia | ~184 My | 19409 | 645 | 24.6 | 102 | 3540 | 81.8% |
| |
| Ancestors in fish |
Age |
Genes |
Blocks |
Average size
(nb genes) |
N50 size
(nb genes) |
Genes not
in blocks |
Coverage
(%) |
| Tetraodontidae | ~65 My | 18444 | 647 | 25.6 | 235 | 1893 | 89.7% |
| Holacanthopterygii | ~200 My | 21074 | 1762 | 9.9 | 21 | 3625 | 82.8% |
| Percomorpha | ~160 My | 21326 | 435 | 43.0 | 551 | 2607 | 87.8% |
| Smegmamorpha | ~170 My | 19687 | 487 | 37.2 | 444 | 1563 | 92.1% |
| Clupeocephala | ~320 My | 20835 | 2574 | 6.3 | 9 | 4712 | 77.4% |
| |
| Ancestors in vertebrates |
Age |
Genes |
Blocks |
Average size
(nb genes) |
N50 size
(nb genes) |
Genes not
in blocks |
Coverage
(%) |
| Euteleostomi | ~420 My | 18736 | 2672 | 4.4 | 5 | 7028 | 62.5% |
| Sarcopterygii | ~400 My | 18833 | 1854 | 7.7 | 13 | 4601 | 75.6% |
| Sauropsida | ~280 My | 17856 | 445 | 34.9 | 206 | 2337 | 86.9% |
| Neognathae | ~105 My | 15305 | 231 | 59.2 | 360 | 1631 | 89.3% |
| Galliformes | ~45 My | 14725 | 181 | 74.3 | 324 | 1276 | 91.3% |
| Sauria | ~267 My | 17080 | 435 | 34.4 | 288 | 2102 | 87.7% |
| Amniota | ~326 My | 19474 | 460 | 34.4 | 247 | 3664 | 81.2% |
| Tetrapoda | ~359 My | 18786 | 1174 | 12.6 | 29 | 3958 | 78.9% |
| |
| Other ancestors |
Age |
Genes |
Blocks |
Average size
(nb genes) |
N50 size
(nb genes) |
Genes not
in blocks |
Coverage
(%) |
| Fungi/Metazoa group | ~1500 My | 2362 | 15 | 2.0 | 2 | 2332 | 1.3% |
| Craniata | ~550 My | 13237 | 547 | 2.2 | 2 | 12022 | 9.2% |
| Ciona | ~100 My | 10822 | 1538 | 3.4 | 4 | 5571 | 48.5% |
| Olfactores | ~550 My | 10004 | 160 | 2.2 | 2 | 9658 | 3.5% |
| Bilateria | ~580 My | 6368 | 39 | 2.1 | 2 | 6286 | 1.3% |
| Coelomata | ~570 My | 8137 | 61 | 2.2 | 2 | 8005 | 1.6% |
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