Statistics on protein trees

The protein tree pipeline is described at the following page.

This page provides a summary of the Ensembl phylogenetic analysis of protein families. The following views are available:

Overview
Gene tree coverage and Gene QC for each species
Size of gene trees (split by their root taxon)
Gene tree nodes, and the inference of speciation / duplication events

Statistics about the gene tree nodes

Species	# Nodes	# speciation nodes	# duplication nodes	# dubious nodes	Average duplication confidence score	Average duplication confidence score (non-dubious nodes)
Eukaryota	86905	60424	15353	11128	11.9 %	20.6 %
Amoebozoa	3366	3083	223	60	32.4 %	41.2 %
Evosea	3182	3070	109	3	37.8 %	38.8 %
Entamoeba	18839	16250	2589	0	78.9 %	78.9 %
Dictyostelia	6926	6269	599	58	56.6 %	62.1 %
Dictyosteliales	6320	6081	234	5	58.9 %	60.2 %
Dictyostelium	8127	7360	767	0	76.4 %	76.4 %
Opisthokonta	6898	6676	212	10	47.6 %	49.9 %
Salpingoecidae	4823	4424	399	0	75.4 %	75.4 %
Metamonada	540	498	39	3	46.4 %	50.0 %
Fornicata	110	108	2	0	33.3 %	33.3 %
Hexamitidae	1318	1216	102	0	71.6 %	71.6 %
Sar	21684	18449	1741	1494	14.9 %	27.7 %
Stramenopiles	11306	10183	696	427	18.7 %	30.2 %
Oomycota	31527	24532	4217	2778	21.2 %	35.2 %
Peronosporaceae	41004	35725	3214	2065	24.7 %	40.6 %
Phytophthora	102093	94379	7655	59	54.7 %	55.1 %
Phytophthora nicotianae	8564	8060	504	0	66.8 %	66.8 %
Pythiaceae	17546	16812	662	72	41.2 %	45.6 %
Pythium	8611	7861	750	0	71.7 %	71.7 %
Globisporangium	21530	20092	1438	0	68.2 %	68.2 %
Saprolegniaceae	37233	33550	3650	33	66.7 %	67.3 %
Aphanomyces	12847	11414	1433	0	79.6 %	79.6 %
Saprolegnia	15303	13927	1376	0	79.1 %	79.1 %
Ochrophyta	8470	8090	353	27	39.7 %	42.7 %
Bacillariophyta	9482	8136	1168	178	43.8 %	50.5 %
Bacillariophycidae	6886	6536	337	13	56.5 %	58.7 %
Bacillariaceae	8368	7713	655	0	76.9 %	76.9 %
Thalassiosira	7204	6531	673	0	75.3 %	75.3 %
Bigyra	474	470	4	0	50.0 %	50.0 %
Rhizaria	3253	3105	148	0	56.1 %	56.1 %
Alveolata	9011	8027	577	407	18.8 %	32.1 %
Apicomplexa	3662	3130	106	426	5.0 %	25.3 %
Conoidasida	1138	1059	43	36	22.7 %	41.8 %
Eimeriorina	5759	5537	205	17	40.9 %	44.3 %
Cryptosporidium	14329	14131	198	0	77.3 %	77.3 %
Sarcocystidae	19329	18668	631	30	65.3 %	68.4 %
Toxoplasma gondii	7673	7555	118	0	76.3 %	76.3 %
Eimeriidae	4346	4187	120	39	29.8 %	39.5 %
Eimeria	21529	20900	629	0	52.9 %	52.9 %
Aconoidasida	1706	1688	14	4	41.5 %	53.3 %
Piroplasmida	3192	3102	34	56	21.9 %	57.8 %
Babesia	8939	8733	206	0	80.1 %	80.1 %
Theileria	5906	5805	101	0	73.3 %	73.3 %
Plasmodium	28293	19134	666	8493	2.1 %	28.4 %
Plasmodium (Vinckeia)	13373	13029	344	0	69.1 %	69.1 %
Plasmodium (Laverania)	10078	9803	275	0	68.5 %	68.5 %
Plasmodium (Plasmodium)	19189	19010	179	0	59.4 %	59.4 %
Plasmodium (Haemamoeba)	138	104	34	0	75.0 %	75.0 %
Ciliophora	5443	3982	1283	178	41.9 %	47.7 %
Intramacronucleata	4476	3719	697	60	46.3 %	50.3 %
Oxytrichidae	54	41	13	0	65.4 %	65.4 %
Oligohymenophorea	13675	11050	2582	43	58.4 %	59.4 %
Hymenostomatida	4498	3824	674	0	63.9 %	63.9 %
Cryptophyceae	219	212	0	7	0.0 %	0.0 %
Pyrenomonadales	3	3	0	0	0.0 %	0.0 %
Discoba	565	553	11	1	31.0 %	33.8 %
Kinetoplastea	1126	1071	53	2	50.3 %	52.2 %
Trypanosomatidae	19405	18421	841	143	44.0 %	51.4 %
Leishmaniinae	7508	7372	134	2	61.3 %	62.2 %
Leishmania	7426	7383	42	1	71.3 %	73.0 %
Leishmania	7854	7725	126	3	71.6 %	73.3 %
Leishmania donovani species complex	7670	7595	75	0	78.0 %	78.0 %
Leptomonas	7849	7768	81	0	77.2 %	77.2 %
Strigomonadinae	4288	4218	70	0	66.4 %	66.4 %
Trypanosoma	25042	18708	381	5953	2.8 %	46.3 %
Trypanosoma with unspecified subgenus	1192	1174	18	0	66.7 %	66.7 %
unclassified Phytomonas	4870	4822	48	0	67.7 %	67.7 %

Statistics on protein trees

Statistics about the gene tree nodes

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