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web-code version: 2021-08-15
database version: 51.01
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Genomicus 51.01 contains 1582884 genes from 136 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 697281 ancestral genes from 64 ancestral species, grouped into 31435 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).

Rhizaria	Genes	Contigs	Average size (nb genes)	N50 size (nb genes)	Genes not in contigs	Coverage (%)
Bigelowiella natans CCMP2755	21706	204	106.1	200	56	99.7%
Plasmodiophora brassicae	9727	130	74.8	231	2	100.0%
Reticulomyxa filosa	39963	8124	3.0	3	15558	61.1%
Kinetoplastida	Genes	Contigs	Average size (nb genes)	N50 size (nb genes)	Genes not in contigs	Coverage (%)
Angomonas deanei	16888	987	3.1	3	13855	18.0%
Leishmania donovani	8032	36	223.1	257	0	100.0%
Leishmania infantum	8526	36	236.8	279	0	100.0%
Leishmania major strain Friedlin	8315	36	231.0	263	0	100.0%
Leishmania panamensis	7711	35	220.3	265	0	100.0%
Leptomonas pyrrhocoris	9872	51	193.4	315	7	99.9%
Leptomonas seymouri	8485	584	14.1	23	274	96.8%
Perkinsela sp. CCAP 1560.4	5252	227	22.9	43	52	99.0%
Phytomonas sp. isolate EM1	6381	87	73.1	193	17	99.7%
Phytomonas sp. isolate Hart1	6451	56	115.0	477	10	99.8%
Strigomonas culicis	12083	465	2.7	3	10810	10.5%
Trypanosoma brucei	8747	11	795.2	1224	0	100.0%
Trypanosoma conorhini	10148	1333	7.4	11	259	97.4%
Trypanosoma cruzi marinkellei	10104	1670	3.2	3	4759	52.9%
Trypanosoma equiperdum	7668	683	10.6	20	450	94.1%
Trypanosoma rangeli SC58	7475	35	2.2	2	7398	1.0%
Trypanosoma theileri	11312	189	59.5	207	64	99.4%
Fornicata	Genes	Contigs	Average size (nb genes)	N50 size (nb genes)	Genes not in contigs	Coverage (%)
Giardia lamblia ATCC 50803	7364	112	65.3	146	49	99.3%
Kipferlia bialata	3622	423	2.2	2	2685	25.9%
Spironucleus salmonicida	8333	214	38.9	99	10	99.9%
Cryptophyta	Genes	Contigs	Average size (nb genes)	N50 size (nb genes)	Genes not in contigs	Coverage (%)
Chroomonas mesostigmatica CCMP1168	505	3	168.3	169	0	100.0%
Cryptomonas paramecium	466	3	155.3	155	0	100.0%
Guillardia theta CCMP2712	24945	502	49.5	161	109	99.6%
Amoebozoa	Genes	Contigs	Average size (nb genes)	N50 size (nb genes)	Genes not in contigs	Coverage (%)
Acanthamoeba castellanii str. Neff	14973	374	40.0	149	8	99.9%
Cavenderia fasciculata	12165	23	528.8	955	2	100.0%
Dictyostelium discoideum AX4	13209	34	388.4	2098	3	100.0%
Dictyostelium purpureum	12399	763	16.2	25	30	99.8%
Entamoeba dispar SAW760	8811	802	10.2	19	633	92.8%
Entamoeba histolytica HM-1 IMSS	8113	505	15.5	28	292	96.4%
Entamoeba invadens IP1	9925	305	32.0	94	179	98.2%
Entamoeba nuttalli P19	6187	1206	4.8	6	393	93.6%
Planoprotostelium fungivorum	17124	748	22.8	49	70	99.6%
Tieghemostelium lacteum	10225	46	222.1	470	8	99.9%
Opisthokonta	Genes	Contigs	Average size (nb genes)	N50 size (nb genes)	Genes not in contigs	Coverage (%)
Capsaspora owczarzaki ATCC 30864	8758	65	134.5	529	13	99.9%
Fonticula alba	5901	60	96.9	613	87	98.5%
Monosiga brevicollis MX1	9172	85	106.8	247	93	99.0%
Salpingoeca rosetta	11624	103	112.4	322	47	99.6%
Sphaeroforma arctica JP610	18213	2199	5.8	9	5481	69.9%
Alveolata	Genes	Contigs	Average size (nb genes)	N50 size (nb genes)	Genes not in contigs	Coverage (%)
Babesia bigemina	5079	141	34.6	1252	201	96.0%
Babesia bovis	3703	12	308.5	834	1	100.0%
Babesia ovata	5031	70	71.8	1228	6	99.9%
Babesia sp. Xinjiang	3066	35	86.9	199	23	99.2%
Besnoitia besnoiti	8224	124	65.8	532	62	99.2%
Cryptosporidium andersoni	3876	88	43.8	75	20	99.5%
Cryptosporidium meleagridis	3753	47	79.7	152	5	99.9%
Cryptosporidium muris RN66	3934	26	150.7	329	16	99.6%
Cryptosporidium parvum Iowa II	3805	8	475.6	460	0	100.0%
Cryptosporidium ubiquitum	3766	31	121.3	286	7	99.8%
Cyclospora cayetanensis	7153	946	7.1	10	436	93.9%
Cystoisospora suis	11543	2320	4.2	5	1903	83.5%
Eimeria acervulina	6867	1171	5.0	7	970	85.9%
Eimeria brunetti	8711	1454	5.6	7	605	93.1%
Eimeria maxima	6057	1111	4.7	6	801	86.8%
Eimeria mitis	8748	1975	3.1	3	2664	69.5%
Eimeria praecox	7635	1481	3.4	4	2594	66.0%
Eimeria tenella	8599	748	8.6	36	2152	75.0%
Gregarina niphandrodes	6375	193	32.4	97	121	98.1%
Hammondia hammondi	8003	86	92.4	227	53	99.3%
Ichthyophthirius multifiliis	8056	917	8.4	13	338	95.8%
Oxytricha trifallax	810	102	2.6	2	540	33.3%
Paramecium tetraurelia	39642	417	94.4	239	259	99.3%
Perkinsus marinus ATCC 50983	23474	1265	14.5	66	5176	78.0%
Plasmodium berghei ANKA	4903	28	174.1	444	28	99.4%
Plasmodium chabaudi chabaudi	5157	31	166.2	424	4	99.9%
Plasmodium coatneyi	5516	14	394.0	404	0	100.0%
Plasmodium cynomolgi strain B	5716	48	105.6	436	649	88.6%
Plasmodium falciparum 3D7	5358	14	382.7	412	0	100.0%
Plasmodium fragile	5672	190	29.6	65	50	99.1%
Plasmodium gaboni	5198	56	86.4	357	359	93.1%
Plasmodium gallinaceum	5246	86	60.6	349	31	99.4%
Plasmodium gonderi	5916	186	30.1	368	313	94.7%
Plasmodium inui San Antonio 1	5832	181	31.9	154	64	98.9%
Plasmodium knowlesi strain H	5102	14	364.4	460	0	100.0%
Plasmodium malariae	6343	1241	2.7	3	3048	51.9%
Plasmodium ovale curtisi	8625	1114	6.9	11	922	89.3%
Plasmodium reichenowi	5040	26	182.1	343	306	93.9%
Plasmodium relictum	345	54	3.0	3	182	47.2%
Plasmodium sp. DRC-Itaito	94	20	4.3	5	8	91.5%
Plasmodium sp. gorilla clade G2	344	58	5.8	8	7	98.0%
Plasmodium vinckei petteri	5160	37	138.8	369	25	99.5%
Plasmodium vivax	5389	56	92.5	432	211	96.1%
Plasmodium yoelii yoelii	7861	2077	3.4	4	854	89.1%
Pseudocohnilembus persalinus	13179	259	50.8	86	12	99.9%
Stentor coeruleus	31426	2048	15.1	24	489	98.4%
Stylonychia lemnae	20740	2883	2.3	2	14251	31.3%
Symbiodinium microadriaticum	43403	2437	16.6	29	2892	93.3%
Tetrahymena thermophila SB210	24725	517	47.3	137	287	98.8%
Theileria equi strain WA	5329	12	444.1	1142	0	100.0%
Theileria orientalis strain Shintoku	4002	5	800.2	1011	1	100.0%
Theileria parva	4079	9	453.2	958	0	100.0%
Toxoplasma gondii ME49	8303	29	283.4	838	85	99.0%
Toxoplasma gondii VEG	8410	51	162.7	522	110	98.7%
Stramenopiles	Genes	Contigs	Average size (nb genes)	N50 size (nb genes)	Genes not in contigs	Coverage (%)
Achlya hypogyna	14406	1067	12.8	25	697	95.2%
Albugo laibachii Nc14	13804	663	20.5	37	189	98.6%
Aphanomyces astaci	19119	405	46.6	215	250	98.7%
Aphanomyces invadans	15248	215	70.3	315	144	99.1%
Aureococcus anophagefferens	11520	369	29.4	317	660	94.3%
Blastocystis hominis	6020	35	171.9	306	4	99.9%
Ectocarpus siliculosus	16269	357	44.7	373	305	98.1%
Fragilariopsis cylindrus CCMP1102	18082	146	123.5	969	57	99.7%
Globisporangium ultimum DAOM BR144	15290	152	99.0	301	239	98.4%
Hondaea fermentalgiana	11853	294	38.6	77	511	95.7%
Hyaloperonospora arabidopsidis Emoy2	14321	528	26.4	73	371	97.4%
Nannochloropsis gaditana CCMP526	3554	727	4.2	5	522	85.3%
Nothophytophthora sp. Chile5	27122	4639	5.4	7	1937	92.9%
Peronospora effusa	8569	622	13.6	22	111	98.7%
Phaeodactylum tricornutum CCAP 1055.1	12178	71	171.3	436	14	99.9%
Phytophthora cactorum	23869	1810	12.4	24	1418	94.1%
Phytophthora infestans T30-4	17785	384	45.3	314	392	97.8%
Phytophthora kernoviae 00238.432	10650	902	11.4	19	367	96.6%
Phytophthora lateralis MPF4	11635	1469	7.2	11	996	91.4%
Phytophthora megakarya	34804	6903	3.8	4	8812	74.7%
Phytophthora nicotianae	10521	1314	7.5	11	730	93.1%
Phytophthora palmivora var. palmivora	24674	5693	3.4	4	5478	77.8%
Phytophthora parasitica P1569	23159	2625	8.3	13	1246	94.6%
Phytophthora ramorum	15605	853	17.2	111	929	94.0%
Phytophthora sojae	26489	70	378.3	2627	9	100.0%
Phytopythium vexans DAOM BR484	11957	1412	7.7	11	1101	90.8%
Plasmopara halstedii	15469	151	99.8	334	401	97.4%
Pseudo-nitzschia multistriata	11895	616	19.2	33	83	99.3%
Pythium aphanidermatum DAOM BR444	12305	1256	9.6	15	264	97.9%
Pythium arrhenomanes ATCC 12531	13805	2589	4.2	5	3043	78.0%
Pythium irregulare DAOM BR486	13804	1920	6.3	9	1803	86.9%
Pythium iwayamai DAOM BR242034	15248	2862	4.3	5	2975	80.5%
Saprolegnia diclina VS20	17359	268	64.4	217	90	99.5%
Saprolegnia parasitica CBS 223.65	20121	1041	19.0	119	332	98.3%
Thalassiosira oceanica	34500	7266	2.8	3	14352	58.4%
Thalassiosira pseudonana CCMP1335	11672	60	194.5	710	2	100.0%
Thraustotheca clavata	13174	2276	5.2	7	1289	90.2%
Other eukaryotes	Genes	Contigs	Average size (nb genes)	N50 size (nb genes)	Genes not in contigs	Coverage (%)
Emiliania huxleyi CCMP1516	38544	1557	23.3	106	2289	94.1%
Naegleria gruberi	15709	300	51.4	175	295	98.1%
Thecamonas trahens ATCC 50062	10543	112	94.0	158	10	99.9%
Tritrichomonas foetus	25030	1291	19.3	33	153	99.4%
Ancestors	Genes	Blocks	Average size (nb genes)	N50 size (nb genes)	Genes not in blocks	Coverage (%)
Aconoidasida	4544	231	2.4	2	4001	11.9%
Alveolata	20710	188	2.1	2	20320	1.9%
Amoebozoa	15353	100	2.0	2	15151	1.3%
Aphanomyces	14378	677	15.7	70	3747	73.9%
Apicomplexa	8325	79	2.1	2	8158	2.0%
Babesia	4017	28	122.9	811	577	85.6%
Bacillariaceae	12400	1098	3.8	4	8251	33.5%
Bacillariophycidae	12157	707	2.2	2	10568	13.1%
Bacillariophyta	13560	190	2.1	2	13161	2.9%
Cercozoa	11774	61	2.0	2	11652	1.0%
Ciliophora	11181	87	2.1	2	11002	1.6%
Conoidasida	7625	59	2.1	2	7499	1.7%
Cryptophyta	8283	104	2.4	2	8032	3.0%
Cryptosporidium	4652	48	85.0	478	573	87.7%
Dictyosteliales	8627	1097	2.5	2	5906	31.5%
Dictyostelids	8444	647	2.3	2	6975	17.4%
Dictyostelium	9116	1543	3.1	3	4403	51.7%
Eimeria	9200	1168	4.5	6	3934	57.2%
Eimeriidae	6721	889	3.0	3	4039	39.9%
Eimeriorina	8364	199	2.2	2	7936	5.1%
Entamoeba	8487	707	9.1	14	2087	75.4%
Eukaryota	22384	329	2.2	2	21675	3.2%
Fornicata	2321	12	2.0	2	2297	1.0%
Hexamitidae	2549	11	2.0	2	2527	0.9%
Hymenostomatida	10579	130	2.1	2	10312	2.5%
Ichthyosporea	8854	35	2.0	2	8783	0.8%
Intramacronucleata	11063	70	2.1	2	10919	1.3%
Kinetoplastida	5059	32	2.1	2	4993	1.3%
Leishmania donovani species complex	8141	39	204.5	259	164	98.0%
Leishmania	8104	48	162.3	257	315	96.1%
Leishmaniinae	8429	61	123.6	246	892	89.4%
Leptomonas	8591	70	116.3	254	448	94.8%
Mycetozoa	10137	58	2.0	2	10020	1.2%
NAME_0	8157	40	198.1	265	233	97.1%
Oligohymenophorea	12687	160	2.1	2	12356	2.6%
Oomycetes	20982	1965	4.8	6	11452	45.4%
Opisthokonta	14273	72	2.0	2	14126	1.0%
Oxytrichidae	5749	2	2.0	2	5745	0.1%
Peronosporaceae	22297	1761	6.8	11	10295	53.8%
Phytophthora	30330	2156	7.3	14	14552	52.0%
Piroplasmida	3716	117	25.6	107	716	80.7%
Plasmodium Haemamoeba	4722	37	123.4	374	156	96.7%
Plasmodium Laverania	5434	32	155.3	366	465	91.4%
Plasmodium Plasmodium	14795	1664	7.2	11	2835	80.8%
Plasmodium Vinckeia	5925	31	153.5	425	1166	80.3%
Plasmodium	6236	57	85.9	187	1338	78.5%
Pyrenomonadales	8249	93	2.7	2	7998	3.0%
Pythiaceae	22394	2563	4.8	7	10074	55.0%
Pythium	24825	3794	4.0	5	9489	61.8%
Rhizaria	14933	91	2.0	2	14750	1.2%
Salpingoecidae	8315	211	2.1	2	7868	5.4%
Saprolegnia	17062	552	25.3	87	3085	81.9%
Saprolegniaceae	19220	892	13.1	28	7503	61.0%
Sarcocystidae	9205	54	136.4	590	1840	80.0%
Stramenopiles	25376	249	2.1	2	24857	2.0%
Strigomonadinae	7299	156	2.2	2	6953	4.7%
Thalassiosira	12116	566	2.2	2	10863	10.3%
Theileria	3961	40	86.2	604	515	87.0%
Toxoplasma gondii	8090	33	238.9	791	207	97.4%
Trypanosoma with unspecified subgenus	14716	1687	7.6	16	1970	86.6%
Trypanosoma	9109	688	10.7	16	1754	80.7%
Trypanosomatidae	9272	627	10.3	17	2815	69.6%
Trypanozoon	7497	152	46.3	144	459	93.9%
unclassified Phytomonas	6210	91	62.7	193	505	91.9%

GenomicusProtists — database version: 51.01 / Web-code version: 2021-08-15 — Dyogen Team