Statistics on modern & ancestral genomes
Genomicus 24.01 contains 1645025 genes from 48 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 1541702 ancestral genes from 36 ancestral species, grouped into 50671 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).
| |
| Brassicaceae |
Age |
Genes |
Contigs |
Average size
(nb genes) |
N50 size
(nb genes) |
Genes not
in contigs |
Coverage
(%) |
| Thellungiella parvula | (extant sp.) | 27132 | 203 | 129.6 | 3604 | 815 | 97.0% |
| Arabidopsis lyrata subsp lyrata | (extant sp.) | 32667 | 273 | 119.1 | 4113 | 164 | 99.5% |
| Brassica oleracea var oleracea | (extant sp.) | 59220 | 435 | 130.6 | 5842 | 2421 | 95.9% |
| Arabis alpina | (extant sp.) | 30729 | 534 | 54.4 | 3503 | 1666 | 94.6% |
| Brassica rapa subsp pekinensis | (extant sp.) | 41018 | 147 | 278.1 | 3999 | 137 | 99.7% |
| Capsella rubella | (extant sp.) | 26521 | 65 | 407.1 | 3422 | 58 | 99.8% |
| Thellungiella halophila | (extant sp.) | 26351 | 42 | 627.0 | 1997 | 19 | 99.9% |
| Arabidopsis thaliana | (extant sp.) | 27416 | 7 | 3916.6 | 5437 | 0 | 100.0% |
| |
| Other Malvidae |
Age |
Genes |
Contigs |
Average size
(nb genes) |
N50 size
(nb genes) |
Genes not
in contigs |
Coverage
(%) |
| Theobroma cacao | (extant sp.) | 29188 | 50 | 582.8 | 3178 | 48 | 99.8% |
| Carica papaya | (extant sp.) | 27582 | 1252 | 19.7 | 127 | 2859 | 89.6% |
| Gossypium raimondii | (extant sp.) | 37505 | 71 | 527.4 | 2768 | 62 | 99.8% |
| Tarenaya hassleriana | (extant sp.) | 28919 | 341 | 84.0 | 779 | 287 | 99.0% |
| Citrus clementina | (extant sp.) | 24533 | 45 | 544.1 | 2495 | 49 | 99.8% |
| |
| Fabids |
Age |
Genes |
Contigs |
Average size
(nb genes) |
N50 size
(nb genes) |
Genes not
in contigs |
Coverage
(%) |
| Populus trichocarpa | (extant sp.) | 41377 | 436 | 93.7 | 2145 | 540 | 98.7% |
| Lotus japonicus | (extant sp.) | 38482 | 1475 | 16.0 | 46 | 14854 | 61.4% |
| Prunus persica | (extant sp.) | 28087 | 41 | 684.6 | 3188 | 18 | 99.9% |
| Medicago truncatula | (extant sp.) | 44115 | 146 | 302.1 | 5443 | 6 | 100.0% |
| Glycine max | (extant sp.) | 54174 | 62 | 872.4 | 2658 | 86 | 99.8% |
| Fragaria vesca | (extant sp.) | 32831 | 8 | 4103.9 | 4051 | 0 | 100.0% |
| |
| Other Rosids |
Age |
Genes |
Contigs |
Average size
(nb genes) |
N50 size
(nb genes) |
Genes not
in contigs |
Coverage
(%) |
| Vitis vinifera | (extant sp.) | 29927 | 33 | 906.9 | 1450 | 0 | 100.0% |
| |
| Other Dicotyledones |
Age |
Genes |
Contigs |
Average size
(nb genes) |
N50 size
(nb genes) |
Genes not
in contigs |
Coverage
(%) |
| Solanum tuberosum | (extant sp.) | 39021 | 13 | 3001.6 | 3012 | 0 | 100.0% |
| Solanum lycopersicum | (extant sp.) | 34675 | 13 | 2667.3 | 2543 | 0 | 100.0% |
| Mimulus guttatus | (extant sp.) | 28140 | 152 | 183.4 | 2039 | 269 | 99.0% |
| |
| Monocotyledones |
Age |
Genes |
Contigs |
Average size
(nb genes) |
N50 size
(nb genes) |
Genes not
in contigs |
Coverage
(%) |
| Oryza nivara | (extant sp.) | 36313 | 12 | 3026.1 | 2977 | 0 | 100.0% |
| Triticum urartu | (extant sp.) | 33484 | 7941 | 3.1 | 3 | 8795 | 73.7% |
| Triticum aestivum | (extant sp.) | 98897 | 10366 | 2.2 | 2 | 75814 | 23.3% |
| Setaria italica | (extant sp.) | 35471 | 31 | 1142.8 | 4216 | 45 | 99.9% |
| Musa acuminata subsp malaccensis | (extant sp.) | 36519 | 12 | 3043.2 | 3106 | 0 | 100.0% |
| Oryza barthii | (extant sp.) | 34575 | 12 | 2881.2 | 2803 | 0 | 100.0% |
| Oryza sativa Indica Group | (extant sp.) | 40745 | 608 | 64.8 | 3163 | 1371 | 96.6% |
| Oryza meridionalis | (extant sp.) | 29748 | 12 | 2479.0 | 2574 | 0 | 100.0% |
| Oryza rufipogon | (extant sp.) | 37071 | 12 | 3089.2 | 3004 | 0 | 100.0% |
| Oryza punctata | (extant sp.) | 31762 | 12 | 2646.8 | 2537 | 0 | 100.0% |
| Leersia perrieri | (extant sp.) | 29078 | 12 | 2423.2 | 2381 | 0 | 100.0% |
| Aegilops tauschii | (extant sp.) | 33929 | 8109 | 3.2 | 3 | 8267 | 75.6% |
| Oryza glumipatula | (extant sp.) | 35735 | 12 | 2977.9 | 2939 | 0 | 100.0% |
| Oryza glaberrima | (extant sp.) | 33164 | 410 | 79.7 | 2508 | 494 | 98.5% |
| Sorghum bicolor | (extant sp.) | 34496 | 60 | 572.3 | 3714 | 157 | 99.5% |
| Zea mays | (extant sp.) | 39469 | 19 | 2071.4 | 4173 | 113 | 99.7% |
| Hordeum vulgare subsp vulgare | (extant sp.) | 24287 | 34 | 679.5 | 3260 | 1184 | 95.1% |
| Oryza sativa Japonica Group | (extant sp.) | 35679 | 12 | 2973.2 | 2973 | 0 | 100.0% |
| Brachypodium distachyon | (extant sp.) | 26552 | 11 | 2413.0 | 5990 | 9 | 100.0% |
| Oryza brachyantha | (extant sp.) | 32037 | 130 | 245.8 | 2613 | 80 | 99.8% |
| |
| Other Magnoliophyta |
Age |
Genes |
Contigs |
Average size
(nb genes) |
N50 size
(nb genes) |
Genes not
in contigs |
Coverage
(%) |
| Amborella trichopoda | (extant sp.) | 27313 | 420 | 63.0 | 232 | 848 | 96.9% |
| |
| Other Plants |
Age |
Genes |
Contigs |
Average size
(nb genes) |
N50 size
(nb genes) |
Genes not
in contigs |
Coverage
(%) |
| Chlamydomonas reinhardtii | (extant sp.) | 14416 | 184 | 76.4 | 236 | 365 | 97.5% |
| Ostreococcus lucimarinus CCE9901 | (extant sp.) | 7603 | 21 | 362.0 | 421 | 0 | 100.0% |
| Physcomitrella patens | (extant sp.) | 32273 | 628 | 50.6 | 99 | 490 | 98.5% |
| Selaginella moellendorffii | (extant sp.) | 34799 | 340 | 102.1 | 310 | 80 | 99.8% |
| |
| Ancestors in Asterids |
Age |
Genes |
Blocks |
Average size
(nb genes) |
N50 size
(nb genes) |
Genes not
in blocks |
Coverage
(%) |
| Solanum | ~10 My | 30520 | 494 | 41.2 | 819 | 10165 | 66.7% |
| Asterid | ~10 My | 26616 | 1210 | 11.0 | 45 | 13305 | 50.0% |
| |
| Ancestors in Fabids |
Age |
Genes |
Blocks |
Average size
(nb genes) |
N50 size
(nb genes) |
Genes not
in blocks |
Coverage
(%) |
| fabids | ~10 My | 48491 | 1285 | 14.3 | 163 | 30177 | 37.8% |
| Rosaceae | ~10 My | 26501 | 479 | 32.9 | 733 | 10761 | 59.4% |
| Leguminosae | ~10 My | 43407 | 950 | 17.7 | 525 | 26614 | 38.7% |
| Papilionoideae | ~10 My | 40932 | 1776 | 10.0 | 38 | 23199 | 43.3% |
| |
| Ancestors in Brassicaceae |
Age |
Genes |
Blocks |
Average size
(nb genes) |
N50 size
(nb genes) |
Genes not
in blocks |
Coverage
(%) |
| Camelineae | ~10 My | 31291 | 292 | 79.1 | 3150 | 8186 | 73.8% |
| Eutremeae | ~10 My | 29878 | 568 | 38.6 | 2740 | 7952 | 73.4% |
| Brassicaceae | ~10 My | 45874 | 952 | 24.0 | 2015 | 22989 | 49.9% |
| Brassica | ~10 My | 60028 | 2855 | 13.7 | 413 | 20914 | 65.2% |
| Arabidopsis | ~10 My | 28924 | 155 | 153.3 | 3977 | 5167 | 82.1% |
| |
| Other Ancestors in Malvidae |
Age |
Genes |
Blocks |
Average size
(nb genes) |
N50 size
(nb genes) |
Genes not
in blocks |
Coverage
(%) |
| Malvaceae | ~10 My | 31138 | 1500 | 12.6 | 308 | 12282 | 60.6% |
| Brassicales | ~10 My | 38411 | 1565 | 9.1 | 36 | 24197 | 37.0% |
| Malvidae | ~10 My | 49722 | 1138 | 16.7 | 764 | 30741 | 38.2% |
| pre alpha | ~10 My | 33527 | 2219 | 5.9 | 12 | 20385 | 39.2% |
| Malvids | ~10 My | 47572 | 1396 | 12.9 | 257 | 29529 | 37.9% |
| |
| Other Ancestors in Rosids |
Age |
Genes |
Blocks |
Average size
(nb genes) |
N50 size
(nb genes) |
Genes not
in blocks |
Coverage
(%) |
| rosids | ~10 My | 59280 | 1346 | 12.8 | 333 | 42110 | 29.0% |
| Eurosids | ~10 My | 66681 | 1455 | 13.7 | 789 | 46757 | 29.9% |
| |
| Other Ancestors in Dicotyledones |
Age |
Genes |
Blocks |
Average size
(nb genes) |
N50 size
(nb genes) |
Genes not
in blocks |
Coverage
(%) |
| Pentapetalae | ~10 My | 59643 | 1674 | 8.5 | 41 | 45428 | 23.8% |
| |
| Ancestors in Monocotyledons |
Age |
Genes |
Blocks |
Average size
(nb genes) |
N50 size
(nb genes) |
Genes not
in blocks |
Coverage
(%) |
| Poaceae | ~10 My | 53160 | 1118 | 17.0 | 151 | 34200 | 35.7% |
| Oryza | ~10 My | 66413 | 1801 | 22.1 | 2788 | 26622 | 59.9% |
| BEP clade | ~10 My | 53659 | 1050 | 19.3 | 668 | 33348 | 37.9% |
| Panicoideae | ~10 My | 33819 | 644 | 32.4 | 1673 | 12970 | 61.6% |
| Andropogoneae | ~10 My | 32927 | 749 | 28.2 | 1581 | 11816 | 64.1% |
| Pooideae | ~10 My | 46040 | 1271 | 14.1 | 122 | 28167 | 38.8% |
| Triticeae | ~10 My | 86055 | 7416 | 2.3 | 2 | 68780 | 20.1% |
| Commelinids | ~10 My | 41218 | 1837 | 2.7 | 2 | 36270 | 12.0% |
| Oryza sativa | ~10 My | 42837 | 708 | 45.5 | 2496 | 10612 | 75.2% |
| Oryzeae | ~10 My | 39676 | 718 | 31.9 | 1721 | 16804 | 57.6% |
| Triticum | ~10 My | 79178 | 6500 | 2.3 | 2 | 64529 | 18.5% |
| |
| Other ancestors |
Age |
Genes |
Blocks |
Average size
(nb genes) |
N50 size
(nb genes) |
Genes not
in blocks |
Coverage
(%) |
| Viridiplantae | ~10 My | 13139 | 24 | 2.4 | 2 | 13082 | 0.4% |
| Embryophyta | ~10 My | 23154 | 56 | 2.2 | 2 | 23031 | 0.5% |
| Tracheophyta | ~10 My | 26020 | 86 | 2.3 | 2 | 25818 | 0.8% |
| Mesangiospermae | ~10 My | 59944 | 1965 | 3.0 | 3 | 54087 | 9.8% |
| Chlorophyta | ~10 My | 6940 | 24 | 2.4 | 2 | 6883 | 0.8% |
| Magnoliophyta | ~10 My | 39087 | 1395 | 2.9 | 3 | 35069 | 10.3% |
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