Genomicus v93.01 Title
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DYOGEN group

web-code version: 2017-06-13
database version: 93.01
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Statistics on modern & ancestral genomes


Genomicus 93.01 contains 1950356 genes from 103 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 1653989 ancestral genes from 84 ancestral species, grouped into 40410 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
(%)
Angola colobus(extant sp.)2046761533.16611499.4%
Black snub-nosed monkey(extant sp.)20824149513.324100295.2%
Bolivian squirrel monkey(extant sp.)1929026772.11465099.7%
Bushbaby(extant sp.)1950637451.811515199.2%
Capuchin(extant sp.)2020083224.05120199.0%
Chimpanzee(extant sp.)2330225091.896335198.5%
Coquerels sifaka(extant sp.)1788462428.45318499.0%
Crab-eating macaque(extant sp.)2140473290.5115419899.1%
Drill(extant sp.)20660121416.83131498.5%
Gibbon(extant sp.)20648108189.182122498.9%
Golden snub-nosed monkey(extant sp.)21132176311.42098695.3%
Gorilla(extant sp.)2158754394.8100426698.8%
Human(extant sp.)2238526384.88757699.7%
Marmoset(extant sp.)1956356346.699715699.2%
Mas night monkey(extant sp.)2032063031.86526398.7%
Mouse lemur(extant sp.)1810343420.37892999.8%
Olive baboon(extant sp.)21464131161.8113826998.7%
Orangutan(extant sp.)2042453385.48430100.0%
Pig-tailed macaque(extant sp.)2087234160.911710099.5%
Rhesus(extant sp.)2109958356.9111840098.1%
Sooty mangabey(extant sp.)2074641549.710712799.4%
Tarsier(extant sp.)1830432584.86261685.7%
Vervet Monkey(extant sp.)1916554353.76966599.7%
pygmy chimpanzee(extant sp.)2104171294.294615399.3%
 
Rodents etc. Age Genes Contigs Average size
(nb genes)
N50 size
(nb genes)
Genes not
in contigs
Coverage
(%)
Brazilian-Guinea pig(extant sp.)1421823560.41823599.8%
Chinese hamster CHOK1GS(extant sp.)20824130159.160614699.3%
Chinese hamster Crigri(extant sp.)1961719979.316113494.2%
Damara mole rat(extant sp.)1773072824.15020298.9%
Degu(extant sp.)1998239650.111313099.3%
Golden Hamster(extant sp.)1825731257.011046597.5%
Guinea pig(extant sp.)1809525869.92146199.7%
Kangaroo rat(extant sp.)1691128957.710823998.6%
Lesser Egyptian jerboa(extant sp.)1784523874.71287799.6%
Long-tailed chinchilla(extant sp.)1780921283.71546999.6%
Mouse(extant sp.)2232794237.4110810100.0%
Naked mole-rat female(extant sp.)2077427475.51589299.6%
Naked mole-rat male(extant sp.)20742196510.21871496.6%
Northern American deer mouse(extant sp.)19854102519.03939998.0%
Pika(extant sp.)1600630103.94439772.5%
Prairie vole(extant sp.)1913019299.14849799.5%
Rabbit(extant sp.)1929358132.467847297.6%
Rat(extant sp.)2224555403.013117899.6%
Ryukyu mouse(extant sp.)1920820960.49640100.0%
Shrew mouse(extant sp.)1906124794.29250100.0%
Squirrel(extant sp.)1847448637.69021298.9%
Tree shrew(extant sp.)1547131623.34508767.1%
Upper Galilee mountains blind mole rat(extant sp.)18647107917.03035498.1%
spretus(extant sp.)1947620973.810440100.0%
 
Laurasiatherias Age Genes Contigs Average size
(nb genes)
N50 size
(nb genes)
Genes not
in contigs
Coverage
(%)
Alpaca(extant sp.)1176520064.45299974.5%
Cat(extant sp.)1940962311.910876999.6%
Common shrew(extant sp.)1318719652.73794639.7%
Cow(extant sp.)1999432624.57791199.9%
Dog(extant sp.)1985681243.360615299.2%
Dolphin(extant sp.)1655031794.45247285.1%
Ferret(extant sp.)1991050339.09627698.6%
Giant Panda(extant sp.)19343181910.21879995.9%
Goat(extant sp.)21343151137.373561197.1%
Hedgehog(extant sp.)1460121052.42960634.2%
Horse(extant sp.)2044960340.17504699.8%
Megabat(extant sp.)1699031874.35319881.2%
Microbat(extant sp.)19728124914.939116994.1%
Pig(extant sp.)22342194114.5128212799.4%
Sheep(extant sp.)20921117174.087056497.3%
Tiger(extant sp.)1754450634.5626299.6%
leopard(extant sp.)1964630164.617119699.0%
 
Xenarthras etc. Age Genes Contigs Average size
(nb genes)
N50 size
(nb genes)
Genes not
in contigs
Coverage
(%)
Armadillo(extant sp.)2271125548.313144893.6%
Sloth(extant sp.)1239311812.22977821.1%
 
Afrotherias etc. Age Genes Contigs Average size
(nb genes)
N50 size
(nb genes)
Genes not
in contigs
Coverage
(%)
Elephant(extant sp.)2003335555.823022898.9%
Hyrax(extant sp.)1605728342.93778351.5%
Tenrec(extant sp.)1657525592.621004739.4%
 
Marsupials & Monotremes Age Genes Contigs Average size
(nb genes)
N50 size
(nb genes)
Genes not
in contigs
Coverage
(%)
Opossum(extant sp.)21327111938.828700100.0%
Platypus(extant sp.)2169818556.822913857.9%
Tasmanian devil(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
(%)
Chicken(extant sp.)1834651033.3517138792.4%
Chinese turtle(extant sp.)18189146711.92372696.0%
Duck(extant sp.)15634138110.517113592.7%
Flycatcher(extant sp.)1530349130.59233497.8%
Lizard(extant sp.)18595105516.3868137092.6%
Turkey(extant sp.)1412314097.250551096.4%
Zebra finch(extant sp.)1748868257.27121100.0%
 
Amphibians Age Genes Contigs Average size
(nb genes)
N50 size
(nb genes)
Genes not
in contigs
Coverage
(%)
Frog(extant sp.)18442133913.12390295.1%
 
Fish Age Genes Contigs Average size
(nb genes)
N50 size
(nb genes)
Genes not
in contigs
Coverage
(%)
Amazon molly(extant sp.)2361599723.25250997.8%
Atlantic cod(extant sp.)2009527166.410266386.7%
Cave fish(extant sp.)23042136715.937127794.5%
Fugu(extant sp.)1852385320.552107794.2%
Medaka(extant sp.)1969933157.874155697.2%
Platyfish(extant sp.)20379124415.444121894.0%
Spotted gar(extant sp.)1834118696.877333298.2%
Stickleback(extant sp.)2078726178.586929998.6%
Tetraodon(extant sp.)1960227726.07670100.0%
Tilapia(extant sp.)2143761334.28846897.8%
Zebrafish(extant sp.)3014082336.394328899.0%
 
Other chordates Age Genes Contigs Average size
(nb genes)
N50 size
(nb genes)
Genes not
in contigs
Coverage
(%)
Ciona intestinalis(extant sp.)1667148433.981624998.5%
Ciona savignyi(extant sp.)1161628540.61435999.5%
Coelacanth(extant sp.)1956925107.211146492.5%
Hagfish(extant sp.)16513132812.31919698.8%
Lamprey(extant sp.)1041518443.64382663.3%
 
Other eukaryotes Age Genes Contigs Average size
(nb genes)
N50 size
(nb genes)
Genes not
in contigs
Coverage
(%)
Caenorhabditis elegans(extant sp.)2022272888.933050100.0%
Fruitfly(extant sp.)1393191547.627313100.0%
Yeast(extant sp.)669217393.65130100.0%
 
Ancestors in Primates Age Genes Blocks Average size
(nb genes)
N50 size
(nb genes)
Genes not
in blocks
Coverage
(%)
Catarrhini~30 My24690179118.7861344586.0%
Cebidae~19 My21688158120.4548266487.7%
Cercopithecidae~19 My24670184118.1828293788.1%
Cercopithecinae~13 My25024184121.8990260689.6%
Colobinae~14 My2261746644.0137211790.6%
Haplorrhini~57 My21596144131.7533263787.8%
Hominidae~16 My23539175119.6831261588.9%
Hominoidea~25 My23899173122.0833279088.3%
Homo/Pan group~5 My23219172122.8949210490.9%
Homo/Pan/Gorilla group~9 My23468158134.5950221590.6%
Lemuriformes~37 My1815718294.1284103694.3%
Macaca~5 My23541117185.9942178592.4%
Pan~3 My22595141150.5834136993.9%
Platyrrhini~19 My21559148128.9538248988.5%
Primates~83 My21921111172.4713278787.3%
Rhinopithecus~3 My21761105618.841193391.1%
Simiiformes~45 My22954161122.3738326085.8%
Strepsirrhini~69 My19572142128.6518130993.3%
 
Ancestors in Rodents etc. Age Genes Blocks Average size
(nb genes)
N50 size
(nb genes)
Genes not
in blocks
Coverage
(%)
Bathyergidae~33 My1921326965.6185157691.8%
Cavia~4 My1796030955.619278595.6%
Cricetidae~20 My20524129146.8577158692.3%
Cricetidae_B~18 My1917424474.3245103694.6%
Cricetinae~17 My20163141133.5480134293.3%
Cricetulus griseus(extant sp.)2080924480.4264120194.2%
Glires~81 My21316115162.7600260887.8%
Heterocephalus glaber(extant sp.)2130260631.6101212690.0%
Hystricognathi~42 My19929171105.5350188790.5%
Hystricomorpha~35 My19270162109.4312155092.0%
Hystricomorpha_A~32 My1851320086.3193126293.2%
Lagomorpha~48 My1818272922.7115162191.1%
Murinae~20 My20594148130.1654133593.5%
Muroidea~44 My21346122157.0842219689.7%
Mus~7 My2059992210.6904122594.1%
Mus_A~6 My20976102193.21006126894.0%
Mus_B~2 My2103195209.1980116994.4%
Myomorpha~51 My20351140131.5466194790.4%
Rodentia~80 My21136109171.1659248588.2%
Sciurognathi~79 My20666114162.5605213889.7%
 
Ancestors in Laurasiatherias Age Genes Blocks Average size
(nb genes)
N50 size
(nb genes)
Genes not
in blocks
Coverage
(%)
Bovidae~25 My21146149129.0597192790.9%
Caniformia~44 My19977135136.8544150992.4%
Caniformia_b~44 My1943739546.1129121593.7%
Caprinae~9 My21276174111.0581195790.8%
Carnivora~56 My2066094201.1833175891.5%
Cetartiodactyla~61 My21138136140.5625203690.4%
Chiroptera~60 My18447112115.036158191.4%
Felidae~15 My1987878240.2812114194.3%
Insectivora~68 My1575726172.73871644.7%
Laurasiatheria~88 My2265193209.51003316486.0%
Panthera~7 My19453183101.436388895.4%
 
Ancestors in mammals Age Genes Blocks Average size
(nb genes)
N50 size
(nb genes)
Genes not
in blocks
Coverage
(%)
Afrotheria~94 My1928240543.1112184090.5%
Atlantogenata~100 My2041235152.1155213089.6%
Boreoeutheria~95 My23440103189.31038394183.2%
Diprotodontia~65 My1824218228.113344681.1%
Euarchontoglires~90 My23051124156.51035364984.2%
Eutheria~102 My2244520690.2666387182.8%
Mammalia~184 My2012267324.0100399680.1%
Marsupialia~148 My1931160528.094236287.8%
Theria~166 My2059535348.6270344983.3%
Xenarthra~64 My1875220617.712291584.5%
 
Ancestors in fish Age Genes Blocks Average size
(nb genes)
N50 size
(nb genes)
Genes not
in blocks
Coverage
(%)
Acanthomorphata~165 My22279165111.327367183.5%
Atherinomorphae~100 My2157545742.5490215090.0%
Clupeocephala~300 My2282419959.217453380.1%
Eupercaria~125 My2080444342.5365198890.4%
Otophysi~150 My22492157212.325316685.9%
Ovalentaria~103 My2187136553.8624222589.8%
Percomorphaceae~125 My2250140948.1638282787.4%
Poeciliinae~100 My2155762131.6126191891.1%
Tetraodontidae~70 My1897062127.2345209289.0%
 
Ancestors in vertebrates Age Genes Blocks Average size
(nb genes)
N50 size
(nb genes)
Genes not
in blocks
Coverage
(%)
Amniota~326 My2017544735.9281412279.6%
Archelosauria~250 My1744540337.8257219687.4%
Chordata~550 My103861852.1299973.7%
Ciona~100 My1082215303.44558048.4%
Cyclostomata~470 My1333213002.421026423.0%
Euteleostomi~420 My1997522476.19627968.6%
Galliformes~45 My1554322065.1324121692.2%
Galloanserae~81 My1621729549.7305156290.4%
Neognathae~105 My1652726655.2340185188.8%
Neopterygii~330 My19656146710.522432178.0%
Passeriformes~45 My1540026053.4177150990.2%
Sarcopterygii~400 My1958515169.819467176.2%
Sauria~267 My1830346334.1248253486.2%
Tetrapoda~359 My19434103514.736424478.2%
Vertebrata~550 My1556411422.421285917.4%
 
Other ancestors Age Genes Blocks Average size
(nb genes)
N50 size
(nb genes)
Genes not
in blocks
Coverage
(%)
Bilateria~580 My8131792.1279692.0%
Ecdysozoa~580 My7527682.0273891.8%
Fungi/Metazoa group~1500 My2209332.2221363.3%