33 pig breeds EPO-Extended

This alignment has been generated in Ensembl release 116 and is composed of 12,900 blocks (up to 986,735 bp long).

API access

This alignment set can be accessed using the Compara API via the Bio::EnsEMBL::DBSQL::MethodLinkSpeciesSetAdaptor using the method_link_type "EPO_EXTENDED" and the species_set_name "collection-pig_breeds".

Species	Assembly	Genome length (bp)	Genome coverage (bp)	Genome coverage (%)	Coding exon length (bp)	Coding exon coverage (bp)	Coding exon coverage (%)
Horse (Equus caballus)	EquCab3.0	2,506,966,135	2,281,529,596	91.01	38,317,516	35,783,805	93.39
Pig - Wuzhishan (Sus scrofa)	minipig_v1.0	2,508,912,457	2,303,328,337	91.81	32,216,998	30,362,255	94.24
Pig - Tibetan (Sus scrofa)	Tibetan_Pig_v2	2,437,742,524	2,249,147,122	92.26	33,242,148	31,678,278	95.30
Pig - Pietrain (Sus scrofa)	Pietrain_pig_v1	2,438,316,299	2,307,301,190	94.63	34,368,936	33,165,032	96.50
Pig - Largewhite (Sus scrofa)	Large_White_v1	2,457,907,103	2,315,889,911	94.22	34,666,066	33,438,262	96.46
Pig - Berkshire (Sus scrofa)	Berkshire_pig_v1	2,434,706,773	2,302,250,140	94.56	34,511,197	33,261,710	96.38
Pig - Hampshire (Sus scrofa)	Hampshire_pig_v1	2,437,109,612	2,310,435,029	94.80	34,573,096	33,303,066	96.33
Pig - Landrace (Sus scrofa)	Landrace_pig_v1	2,440,981,886	2,306,562,851	94.49	34,646,469	33,384,454	96.36
Pig - Duroc (Sus scrofa)	Ninghe_Sus_1	2,458,257,385	2,331,639,548	94.85	31,082,983	30,239,090	97.29
Pig - Jinhua (Sus scrofa)	Jinhua_pig_v1	2,453,702,738	2,304,364,427	93.91	34,359,345	33,135,216	96.44
Pig - Ghungroo (Sus scrofa)	ICAR-NRCP-G1	2,550,824,316	2,325,745,210	91.18	32,372,433	31,318,804	96.75
Pig (Sus scrofa)	Sscrofa11.1	2,501,912,388	2,358,285,376	94.26	35,448,596	33,784,717	95.31
Pig - Large White (GCA_044906105.1) (Sus scrofa)	ASM4490610v1	2,620,975,778	2,333,331,223	89.03	34,081,794	32,723,876	96.02
Pig - PB115 (Sus scrofa)	CAU-K	2,444,985,074	2,317,775,831	94.80	35,284,272	33,656,136	95.39
Pig - euw1 (european wild boar) (Sus scrofa)	ASM2165605v1	2,457,990,317	2,322,258,571	94.48	32,847,998	31,459,240	95.77
Pig - Ossabaw miniature (Sus scrofa)	ASM2471841v1	2,455,681,563	2,324,720,915	94.67	35,510,875	33,754,079	95.05
Pig - NIHS-2020 (Sus scrofa)	ASM1855540v1	2,598,860,052	2,329,279,482	89.63	36,548,658	34,309,958	93.87
Pig USMARC (Sus scrofa)	USMARCv1.0	2,755,438,035	2,316,385,430	84.07	35,166,034	33,006,578	93.86
Pig - Norwegian Landrace (Sus scrofa)	norwegian_landrace	2,633,804,232	2,332,528,413	88.56	33,938,251	32,383,811	95.42
Pig - Wuzhishan (GCA_048338725.1) (Sus scrofa)	T2T_pig1.0	2,633,182,804	2,327,625,767	88.40	34,675,004	33,122,782	95.52
Pig - Korean minipig (GCA_039654815.1) (Sus scrofa)	ASM3965481v1	2,520,010,826	2,324,251,867	92.23	32,966,069	31,173,609	94.56
Pig - Bama miniature (Sus scrofa)	ASM764409v1	2,491,069,675	2,312,329,226	92.82	35,806,036	33,929,104	94.76
Pig - Meishan (Sus scrofa)	Meishan_pig_v1	2,467,495,771	2,302,991,377	93.33	34,405,547	33,156,590	96.37
Pig - HJB (Sus scrofa)	ASM4490618v1	2,716,729,215	2,325,556,696	85.60	33,557,532	32,319,092	96.31
Pig - Juema (Sus scrofa)	ASM4086911v1	2,721,492,317	2,326,387,533	85.48	34,442,225	32,873,562	95.45
Pig - Chenghua (Sus scrofa)	ASM3744751v1	2,714,138,220	2,326,961,822	85.73	34,227,502	32,806,467	95.85
Pig - Ningxiang (Sus scrofa domesticus)	ASM2056790v1	2,440,961,843	2,323,091,148	95.17	35,175,308	33,654,435	95.68
Pig - Meishan (GCA_017957985.1) (Sus scrofa domesticus)	ASM1795798v1	2,510,054,566	2,325,709,536	92.66	33,516,979	32,010,877	95.51
Pig - Rongchang (Sus scrofa)	Rongchang_pig_v1	2,459,027,728	2,307,894,481	93.85	34,688,475	33,514,004	96.61
Pig - Bamei (Sus scrofa)	Bamei_pig_v1	2,460,755,741	2,304,243,976	93.64	34,436,299	33,202,491	96.42
Pig - Banna miniature (Sus scrofa)	Banna	2,656,541,011	2,326,346,498	87.57	34,718,878	33,034,512	95.15
Cattle (Bos taurus)	ARS-UCD2.0	2,770,686,120	2,554,645,163	92.20	35,918,484	34,116,585	94.98
Sheep (Ovis aries)	ARS-UI_Ramb_v3.0	2,654,063,983	2,518,836,186	94.90	34,989,924	33,543,489	95.87

Block size distribution

Size range	All 12,900 alignment blocks
Size range	# blocks	Total size (incl. gaps)
10 bp - 100 bp	3	205.0 bp
100 bp - 1 kb	25	11.7 kb
1 kb - 10 kb	255	1.5 Mb
10 kb - 100 kb	5,520	249.8 Mb
100 kb - 1 Mb	4,222	1.6 Gb
1 Mb - 10 Mb	2,875	2.9 Gb

33 pig breeds EPO-Extended

API access

Block size distribution

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