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Genomicus v66.01 Title
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DYOGEN group

web-code version: 2012-04-17
database version: 66.01


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Statistics on modern & ancestral genomes


Genomicus 66.01 contains 1000804 genes from 57 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 863514 ancestral genes from 48 ancestral species, grouped into 30703 blocks of collinear genes.

The following tables present statistics on the data used in Genomicus, and on the reconstructed blocks in the ancestral species.

  1. For extant species, a "contig" means a segment of the genome sequence assembly (chromosomes, scaffolds, contig) with at least two genes.
  2. 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.)2133060355.19042499.9%
Orangutan(extant sp.)2006852385.98320100.0%
Rhesus(extant sp.)2190590236.1112066097.0%
Gibbon(extant sp.)1816138646.512321598.8%
Tarsier(extant sp.)1361515392.321015025.4%
Mouse lemur(extant sp.)1631930024.15392775.9%
Gorilla(extant sp.)2096227776.410160100.0%
Chimpanzee(extant sp.)1874660309.280319299.0%
Bushbaby(extant sp.)1950637451.811515199.2%
Marmoset(extant sp.)20993124164.8106155697.4%
 
Rodents etc. Age Genes Contigs Average size
(nb genes)
N50 size
(nb genes)
Genes not
in contigs
Coverage
(%)
Squirrel(extant sp.)1482730313.23498066.4%
Mouse(extant sp.)22692106213.711694099.8%
Rat(extant sp.)22938221042.613730100.0%
Kangaroo rat(extant sp.)1579831242.93671657.5%
Rabbit(extant sp.)1901856532.966645797.6%
Pika(extant sp.)1599330093.94439772.5%
Guinea pig(extant sp.)1867327667.32159799.5%
Tree shrew(extant sp.)1545831613.34508767.1%
 
Laurasiatherias Age Genes Contigs Average size
(nb genes)
N50 size
(nb genes)
Genes not
in contigs
Coverage
(%)
Hedgehog(extant sp.)1458821042.42960634.2%
Microbat(extant sp.)19728124914.939116994.1%
Pig(extant sp.)1749320874.610600100.0%
Horse(extant sp.)2043659345.67504699.8%
Cat(extant sp.)1504826944.15402473.3%
Dog(extant sp.)1930541470.95440100.0%
Cow(extant sp.)1999432624.57791199.9%
Dolphin(extant sp.)1653731784.45247285.1%
Alpaca(extant sp.)1175220054.45299974.5%
Giant Panda(extant sp.)19343181910.21879995.9%
Megabat(extant sp.)1699031874.35319881.2%
Common shrew(extant sp.)1318719652.73794639.7%
 
Xenarthras etc. Age Genes Contigs Average size
(nb genes)
N50 size
(nb genes)
Genes not
in contigs
Coverage
(%)
Sloth(extant sp.)1239311812.22977821.1%
Armadillo(extant sp.)1480325862.73782247.2%
 
Afrotherias etc. Age Genes Contigs Average size
(nb genes)
N50 size
(nb genes)
Genes not
in contigs
Coverage
(%)
Hyrax(extant sp.)1604428332.93778351.5%
Elephant(extant sp.)2003335555.823022898.9%
Tenrec(extant sp.)1656225582.521004739.3%
 
Marsupials & Monotremes Age Genes Contigs Average size
(nb genes)
N50 size
(nb genes)
Genes not
in contigs
Coverage
(%)
Opossum(extant sp.)19466111769.626420100.0%
Platypus(extant sp.)1795114837.627675062.4%
Tasmanian harrisii(extant sp.)1878819668.715165491.2%
Wallaby(extant sp.)1529017202.421111927.3%
 
Birds & Reptiles Age Genes Contigs Average size
(nb genes)
N50 size
(nb genes)
Genes not
in contigs
Coverage
(%)
Zebra finch(extant sp.)1747567260.87121100.0%
Lizard(extant sp.)17805100916.4834130292.7%
Chicken(extant sp.)1673648348.67344100.0%
Turkey(extant sp.)1412514097.250551296.4%
 
Amphibians Age Genes Contigs Average size
(nb genes)
N50 size
(nb genes)
Genes not
in contigs
Coverage
(%)
Frog(extant sp.)18429133813.12390295.1%
 
Fish Age Genes Contigs Average size
(nb genes)
N50 size
(nb genes)
Genes not
in contigs
Coverage
(%)
Fugu(extant sp.)1852385320.552107794.2%
Atlantic cod(extant sp.)2009527166.410266386.7%
Zebrafish(extant sp.)26100178145.1100428098.9%
Medaka(extant sp.)1968633058.074155697.2%
Stickleback(extant sp.)2078726178.586929998.6%
Tetraodon(extant sp.)1960227726.07670100.0%
 
Other chordates Age Genes Contigs Average size
(nb genes)
N50 size
(nb genes)
Genes not
in contigs
Coverage
(%)
Ciona savignyi(extant sp.)1160428440.71435999.5%
Lamprey(extant sp.)1040218433.64382663.2%
Coelacanth(extant sp.)1903324727.111145092.4%
Ciona intestinalis(extant sp.)1667148433.981624998.5%
 
Other eukaryotes Age Genes Contigs Average size
(nb genes)
N50 size
(nb genes)
Genes not
in contigs
Coverage
(%)
Yeast(extant sp.)669217393.65130100.0%
Caenorhabditis elegans(extant sp.)2038972912.733210100.0%
Fruitfly(extant sp.)1391714994.127230100.0%
 
Ancestors in Primates Age Genes Blocks Average size
(nb genes)
N50 size
(nb genes)
Genes not
in blocks
Coverage
(%)
Homo/Pan/Gorilla group~9 My21171110178.0781159392.5%
Primates~83 My20981129145.8587217789.6%
Haplorrhini~57 My20605182102.4504196990.4%
Simiiformes~45 My21286145130.6603234589.0%
Catarrhini~31 My21724134143.7744246688.6%
Hominidae~16 My21557121162.5751189291.2%
Homo/Pan group~5 My1969481235.879759397.0%
Hominoidea~25 My21340131148.4734190491.1%
Strepsirrhini~69 My1886446038.394122593.5%
 
Ancestors in Rodents etc. Age Genes Blocks Average size
(nb genes)
N50 size
(nb genes)
Genes not
in blocks
Coverage
(%)
Rodentia~80 My1987218299.9448169491.5%
Sciurognathi~79 My1972432355.9189167291.5%
Murinae~37 My20167167112.8513132793.4%
Glires~81 My20261151121.7690188490.7%
Lagomorpha~48 My1797170323.5116146591.8%
 
Ancestors in Laurasiatherias Age Genes Blocks Average size
(nb genes)
N50 size
(nb genes)
Genes not
in blocks
Coverage
(%)
Insectivora~68 My1566026352.73856845.3%
Carnivora~56 My1930022480.7221121693.7%
Chiroptera~60 My18305115314.636147392.0%
Caniformia~44 My1895021185.324994295.0%
Cetartiodactyla~61 My1973825671.5355143392.7%
Laurasiatheria~88 My21219114165.5849235388.9%
 
Ancestors in mammals Age Genes Blocks Average size
(nb genes)
N50 size
(nb genes)
Genes not
in blocks
Coverage
(%)
Boreoeutheria~95 My22007129146.4933312485.8%
Euarchontoglires~90 My21723121156.7810276687.3%
Diprotodontia~65 My1814817718.314337681.4%
Theria~166 My1979732751.7254290785.3%
Marsupialia~148 My1887951832.3123213988.7%
Eutheria~102 My2138322182.1549324684.8%
Afrotheria~94 My1916141841.7127172691.0%
Xenarthra~64 My1530425992.73823946.2%
Atlantogenata~100 My1952040343.4127204289.5%
Mammalia~184 My1901369722.598333582.5%
 
Ancestors in fish Age Genes Blocks Average size
(nb genes)
N50 size
(nb genes)
Genes not
in blocks
Coverage
(%)
Tetraodontidae~65 My1842165125.3280196589.3%
Holacanthopterygii~200 My2069817949.621341983.5%
Percomorpha~160 My2043771725.1196242588.1%
Smegmamorpha~170 My1951758930.3299168491.4%
Clupeocephala~320 My2063726476.19461677.6%
 
Ancestors in vertebrates Age Genes Blocks Average size
(nb genes)
N50 size
(nb genes)
Genes not
in blocks
Coverage
(%)
Euteleostomi~420 My1829026874.35667563.5%
Sarcopterygii~400 My1837218687.512433776.4%
Neognathae~105 My1524923258.6353166189.1%
Galliformes~45 My1470217477.1328128791.2%
Sauria~267 My1677251029.0199200088.1%
Amniota~326 My1881849631.3245329882.5%
Tetrapoda~359 My18367114912.828370679.8%
 
Other ancestors Age Genes Blocks Average size
(nb genes)
N50 size
(nb genes)
Genes not
in blocks
Coverage
(%)
Fungi/Metazoa group~1500 My2333162.1223001.4%
Craniata~550 My129795462.22117859.2%
Ciona~100 My1076615453.44548049.1%
Olfactores~550 My98641592.2295193.5%
Bilateria~580 My6101392.1260181.4%
Coelomata~570 My7867682.2277201.9%