Hg19 100way Genome size statistics

see also

• 100way statistics interactive table
• Human 100-way Hg19 100way conservation alignment
• Human 100-way Hg19 100way conservation lastz parameters
• all other UCSC Multiple Alignments

statistics collected from UCSC 2bit files

• The external link in the first column goes to the FTP location where the genome sequence was obtained
• The external links from the UCSC database name go to the UCSC genome-test browser for that genome
• N bases == unknown bases in the assembly marked by "N"
• non-N bases == called bases in the assembly
• total size == all bases in assembly, N and non-N
• The % masked is masking from Repeat Masker or Window Masker plus TRF/Simple Repeats, whichever is greater, usually WindowMasker for these genomes
• The common name external links go to information pages for this genome
• The coverage numbers are taken directly from information README files from the sequencing center
• The N50 size is calculated directly from the UCSC chrom.sizes file which is the size of the chromosomes as seen in the UCSC genome browser

do not edit, automatically generated table

order count/ ftp src	ucsc db name/ genome-test	chrom count	total size	non-N bases	N base count	% masked	common name/ src info	coverage	N50 chrom.sizes	alignment type	% of hg19 matched (chainLink table)	chain minScore	chain linearGap
01	hg19	93	3,137,161,264	2,897,310,462	239,850,802	% 50.63	Human	20X	146364022	N/A	N/A	N/A	N/A
02	panTro4	24,129	3,309,577,922	2,902,338,967	407,238,955	% 51.29	Chimp	6X	143986469	RecipBest	95.279%	5000	medium
03	gorGor3	46,823	3,029,553,646	2,822,760,080	206,793,566	% 48.80	Gorilla	2.1X	145327772	SyntenicNet	89.876%	5000	medium
04	ponAbe2	55	3,446,771,396	3,093,543,172	353,228,224	% 50.89	Orangutan	6X	135191526	SyntenicNet	91.350%	5000	medium
05	nomLeu3	17,492	2,962,077,449	2,756,609,047	205,468,402	% 51.14	Gibbon	5.6X	117381234	SyntenicNet	87.764%	5000	medium
06	rheMac3	34,103	2,969,988,180	2,639,145,830	330,842,350	% 48.54	Rhesus	50X	150158102	SyntenicNet	82.859%	5000	medium
07	macFas5	7,601	2,946,843,737	2,803,866,385	142,977,352	% 50.11	Macaca fascicularis	68X	152835861	RecipBest	86.666%	5000	medium
08	papHam1	387,374	2,867,564,654	2,741,849,051	125,715,603	% 48.70	Baboon	5.3X	88525	RecipBest	82.810%	5000	medium
09	chlSab1	2,004	2,789,656,328	2,752,000,999	37,655,329	% 48.77	Chlorocebus sabaeus	95X	101219884	RecipBest	86.446%	5000	medium
10	calJac3	14,205	2,914,958,544	2,752,505,800	162,452,744	% 47.71	Marmoset	6X	132174527	SyntenicNet	70.654%	5000	medium
11	saiBol1	2,685	2,608,572,064	2,477,131,095	131,440,969	% 46.69	Squirrel monkey	80X	18744880	RecipBest	69.598%	5000	medium
12	otoGar3	7,793	2,519,724,550	2,359,530,453	160,194,097	% 39.51	Bushbaby	137X	13852661	RecipBest	54.830%	3000	medium
13	tupChi1	50,750	2,846,580,235	2,706,389,135	140,191,100	% 40.02	Tupaia chinensis	80X	3670124	RecipBest	46.558%	3000	medium
14	speTri2	12,483	2,478,393,770	2,311,060,300	167,333,470	% 36.27	Squirrel	495X	8192786	RecipBest	49.723%	3000	medium
15	jacJac1	10,896	2,835,242,767	2,470,259,869	364,982,898	% 37.29	Jaculus jaculus	78X	22080993	RecipBest	35.106%	3000	medium
16	micOch1	6,335	2,287,340,943	2,104,321,675	183,019,268	% 23.89	Microtus ochrogaster	94X	61813736	RecipBest	32.285%	3000	medium
17	criGri1	52,711	2,360,146,428	2,301,325,917	58,820,511	% 26.43	Cricetulus griseus	130X	1558295	N/A	N/A	1000	N/A
18	mesAur1	21,484	2,504,925,039	2,076,176,254	428,748,785	% 25.70	Mesocricetus auratus	115X	12753307	N/A	N/A	1000	N/A
19	mm10	66	2,730,871,774	2,652,783,500	78,088,274	% 45.18	Mouse	20X	130694993	RecipBest	35.249%	3000	medium
20	rn5	2,739	2,909,698,938	2,572,853,723	336,845,215	% 42.81	Rat	6X	154597545	SyntenicNet	31.662%	3000	medium
21	octDeg1	7,134	2,995,882,938	2,526,254,692	469,628,246	% 26.47	Octodon degus	80X	12091372	RecipBest	41.385%	3000	medium
22	hetGla2	4,229	2,618,204,639	2,314,771,103	303,433,536	% 32.31	Naked mole-rat	90X	20532749	RecipBest	47.600%	3000	medium
23	cavPor3	3,144	2,723,219,641	2,663,369,733	59,849,908	% 27.53	Guinea pig	6.76X	27942054	SyntenicNet	43.680%	3000	medium
24	chiLan1	2,838	2,390,852,391	2,284,276,400	106,575,991	% 30.82	Chinchilla	87X	21893125	in progress	N/A	1000	N/A
25	oryCun2	3,242	2,737,490,501	2,604,023,284	133,467,217	% 43.74	Rabbit	6.51X	111795807	SyntenicNet	44.317%	3000	medium
26	ochPri3	10,420	2,229,835,716	1,943,987,870	285,847,846	% 29.53	Pika	103X	26863993	RecipBest	34.676%	3000	medium
27	susScr3	4,583	2,808,525,991	2,518,987,191	289,538,800	% 44.30	Pig	24X	148491826	SyntenicNet	45.977%	3000	medium
28	vicPac2	276,611	2,172,177,994	2,078,582,856	93,595,138	% 35.40	Alpaca	22X	7263804	RecipBest	50.193%	3000	medium
29	camFer1	13,334	2,009,194,609	1,985,416,433	23,778,176	% 33.32	Camelus ferus	30X	2005940	RecipBest	50.419%	3000	medium
30	turTru2	240,901	2,551,996,573	2,332,402,443	219,594,130	% 43.56	Dolphin	3.5X	116261	RecipBest	51.158%	3000	medium
31	orcOrc1	1,668	2,372,919,877	2,249,582,112	123,337,765	% 42.47	Orcinus orca	200X	12735091	RecipBest	52.072%	3000	medium
32	panHod1	15,059	2,696,886,330	2,507,986,438	188,899,892	% 42.51	Pantholops hodgsonii	67X	2772860	RecipBest	46.863%	3000	medium
33	bosTau7	11,692	2,981,119,579	2,804,673,174	176,446,405	% 49.56	Cow	7.1X	85119472	SyntenicNet	46.971%	3000	medium
34	oviAri3	5,698	2,619,054,388	2,534,335,866	84,718,522	% 45.18	Sheep	142X	100079507	RecipBest	46.833%	3000	medium
35	capHir1	77,021	2,635,848,900	2,495,939,845	139,909,055	% 43.55	Capra hircus	86.64X	92306894	RecipBest	46.498%	3000	medium
36	equCab2	34	2,484,532,062	2,428,790,173	55,741,889	% 40.97	Horse	6.8X	91571448	SyntenicNet	57.050%	3000	medium
37	cerSim1	3,087	2,464,367,180	2,366,858,012	97,509,168	% 38.80	White rhinoceros	91X	26277727	Net	58.103%	3000	medium
38	felCat5	5,500	2,455,541,136	2,364,296,207	91,244,929	% 43.24	Cat	12X	148491654	RecipBest	52.426%	3000	medium
39	musFur1	7,741	2,410,758,013	2,277,906,570	132,851,443	% 38.98	Ferret	162X	9335154	RecipBest	50.993%	3000	medium
40	canFam3	3,268	2,410,976,875	2,392,715,236	18,261,639	% 43.01	Dog	7.6X	63241923	SyntenicNet	51.848%	3000	medium
41	ailMel1	81,467	2,299,509,015	2,245,312,831	54,196,184	% 38.96	Panda	73X	1281781	SyntenicNet	50.022%	3000	medium
42	odoRosDiv1	3,892	2,400,133,628	2,300,235,509	99,898,119	% 40.52	Odobenus rosmarus divergens	200X	2616778	RecipBest	53.559%	3000	medium
43	lepWed1	16,711	3,156,902,762	2,223,164,129	933,738,633	% 40.09	Leptonychotes weddellii	82X	904031	RecipBest	52.424%	3000	medium
44	pteAle1	65,597	1,985,958,707	1,944,625,202	41,333,505	% 32.56	Pteropus alecto	110X	15954802	N/A	N/A	1000	N/A
45	pteVam1	96,944	1,996,076,410	1,839,436,660	156,639,750	% 31.75	Megabat	2X	124060	RecipBest	45.414%	3000	medium
46	myoDav1	101,769	2,059,799,708	1,878,461,987	181,337,721	% 23.35	Myotis Davidii	110X	3454484	N/A	N/A	1000	N/A
47	myoLuc2	11,654	2,034,575,300	1,966,419,868	68,155,432	% 33.71	Microbat	2.18X	4293315	in progress	N/A	1000	N/A
48	eptFus1	6,788	2,026,627,185	1,811,378,799	215,248,386	% 24.11	Eptesicus fuscus	84X	13454942	N/A	N/A	1000	N/A
49	eriEur2	5,803	2,715,720,925	2,333,073,535	382,647,390	% 45.60	Hedgehog	79X	3264618	RecipBest	26.149%	3000	medium
50	sorAra2	12,845	2,423,158,183	2,192,103,426	231,054,757	% 32.76	Shrew	120X	22794405	RecipBest	27.681%	3000	medium
51	conCri1	2,038	1,769,657,897	1,682,542,007	87,115,890	% 18.21	Condylura cristata	113.1X	55520359	RecipBest	37.034%	3000	medium
52	loxAfr3	2,353	3,196,760,833	3,118,565,340	78,195,493	% 47.63	Elephant	7X	46401353	SyntenicNet	46.636%	3000	medium
53	eleEdw1	8,768	3,843,982,861	3,315,871,847	528,111,014	% 49.11	Elephantulus edwardii	62X	15011382	RecipBest	27.675%	3000	medium
54	chrAsi1	20,500	4,210,110,458	3,363,564,316	846,546,142	% 20.11	Chrysochloris asiatica	66X	13470186	RecipBest	34.209%	3000	medium
55	oryAfe1	22,509	4,444,080,527	3,415,340,621	1,028,739,906	% 31.09	Orycteropus afer	44X	7875832	RecipBest	41.668%	3000	medium
56	echTel2	8,402	2,947,024,286	2,605,196,361	341,827,925	% 28.26	Tenrec	78X	45764842	RecipBest	30.135%	3000	medium
57	triMan1	6,323	3,103,808,406	2,769,099,677	334,708,729	% 36.24	Manatee	150X	14442683	RecipBest	46.580%	3000	medium
58	dasNov3	46,559	3,631,522,711	3,299,882,028	331,640,683	% 49.28	Armadillo	6X	1687935	RecipBest	46.571%	3000	medium
59	monDom5	11	3,605,631,728	3,501,660,299	103,971,429	% 55.95	Opossum	6.8X	527952102	SyntenicNet	14.358%	5000	loose
60	sarHar1	35,974	3,174,693,010	2,931,539,702	243,153,308	% 39.66	Tasmanian devil	85X	1847106	RecipBest	7.414%	5000	loose
61	macEug2	277,711	3,075,184,024	2,536,076,954	539,107,070	% 47.39	Wallaby	2X	36602	RecipBest	6.534%	5000	loose
62	ornAna1	201,523	1,996,811,212	1,842,235,522	154,575,690	% 47.89	Platypus	6X	991605	RecipBest	7.627%	5000	loose
63	falChe1	5,863	1,174,811,715	1,150,993,769	23,817,946	% 18.62	Falco cherrug	147X	4154532	RecipBest	3.812%	5000	loose
64	falPer1	7,021	1,171,973,431	1,153,404,348	18,569,083	% 18.69	Falco peregrinus	137.6X	3935757	RecipBest	3.879%	5000	loose
65	ficAlb2	21,428	1,118,343,587	1,102,323,882	16,019,705	% 24.04	Ficedula albicollis	60X	64724594	RecipBest	3.715%	5000	loose
66	zonAlb1	6,018	1,052,600,561	1,006,293,510	46,307,051	% 20.03	Zonotrichia albicollis	63X	4866725	RecipBest	3.476%	5000	loose
67	geoFor1	27,239	1,065,292,181	1,041,286,029	24,006,152	% 19.99	Medium ground finch	115X	5255844	Net	3.503%	5000	loose
68	taeGut2	37,096	1,232,135,591	1,222,864,691	9,270,900	% 8.11	Zebra finch	5.5X	62374962	RecipBest	5.321%	5000	loose
69	pseHum1	5,406	1,042,997,632	1,030,030,436	12,967,196	% 20.21	Pseudopodoces humilis	96.25X	16337386	RecipBest	3.982%	5000	loose
70	melUnd1	25,212	1,117,373,619	1,086,614,815	30,758,804	% 19.62	Budgerigar	7X	10614383	RecipBest	3.577%	5000	loose
71	amaVit1	182,974	1,175,404,042	1,128,255,752	47,148,290	% 18.36	Parrot	24X	19239	RecipBest	3.298%	5000	loose
72	araMac1	192,790	1,204,700,227	997,522,769	207,177,458	% 16.49	Ara macao	26X	15974	RecipBest	2.912%	5000	loose
73	colLiv1	14,923	1,107,989,085	1,086,925,875	21,063,210	% 19.83	Columba livia	60X	3148738	RecipBest	3.683%	5000	loose
74	anaPla1	78,488	1,105,052,351	1,069,972,754	35,079,597	% 20.21	Anas platyrhynchos	60X	1233631	RecipBest	3.509%	5000	loose
75	galGal4	15,932	1,046,932,099	1,032,854,810	14,077,289	% 20.41	Chicken	12X	90216835	RecipBest	3.684%	5000	loose
76	melGal1	5,891	1,061,817,101	935,922,386	125,894,715	% 6.60	Turkey	5X	74864452	SyntenicNet	2.645%	5000	loose
77	allMis1	14,645	2,174,259,888	2,128,720,123	45,539,765	% 37.18	American alligator	68X	508966	RecipBest	7.084%	5000	loose
78	cheMyd1	140,023	2,208,410,377	2,110,381,997	98,028,380	% 29.65	Chelonia mydas	110X	3864108	RecipBest	3.696%	5000	loose
79	chrPic1	80,984	2,589,745,704	2,158,289,746	431,455,958	% 31.20	Painted turtle	15X	5212367	in progress	N/A	1000	N/A
80	pelSin1	19,904	2,202,483,752	2,106,639,384	95,844,368	% 33.82	Pelodiscus sinensis	105X	3350749	in progress	N/A	1000	N/A
81	apaSpi1	286,620	1,931,078,847	1,877,982,184	53,096,663	% 29.87	Apalone spinifera	33.4X	2306994	RecipBest	2.952%	5000	loose
82	anoCar2	6,457	1,799,143,587	1,701,353,767	97,789,820	% 41.98	Lizard	7.1X	150641573	SyntenicNet	3.552%	5000	loose
83	xenTro7	7,728	1,437,530,879	1,365,936,747	71,594,132	% 33.98	X. tropicalis	7.44X	124127367	RecipBest	3.153%	5000	loose
84	latCha1	22,819	2,860,591,921	2,183,592,768	676,999,153	% 45.68	Coelacanth	77.5X	924513	RecipBest	2.749%	5000	loose
85	tetNig2	27	358,618,246	302,314,788	56,303,458	% 20.27	Tetraodon	7.9X	13390619	Net	1.712%	5000	loose
86	fr3	6,835	391,484,715	350,961,831	40,522,884	% 19.01	Fugu	8.5X	11516971	Net	1.703%	5000	loose
87	takFla1	34,223	377,992,166	314,409,984	63,582,182	% 17.77	Takifugu flavidus	131X	315240	N/A	N/A	1000	N/A
88	oreNil2	5,678	927,696,114	816,084,674	111,611,440	% 25.51	Nile tilapia	269X	27159252	RecipBest	1.832%	5000	loose
89	neoBri1	9,083	847,883,811	685,897,279	161,986,532	% 24.12	Neolamprologus brichardi	171X	4430025	N/A	N/A	1000	N/A
90	hapBur1	7,994	831,398,301	698,936,397	132,461,904	% 24.10	Haplochromis burtoni	131X	1194190	N/A	N/A	1000	N/A
91	mayZeb1	3,725	849,595,388	713,527,863	136,067,525	% 25.04	Maylandia zebra	129.7X	3702874	N/A	N/A	1000	N/A
92	punNye1	7,233	830,129,318	698,757,151	131,372,167	% 24.56	Pundamilia nyererei	126X	2525540	N/A	N/A	1000	N/A
93	oryLat2	7,189	869,000,216	700,386,597	168,613,619	% 33.09	Medaka	10.6X	29908082	Net	1.849%	5000	loose
94	xipMac1	20,632	729,664,433	652,811,251	76,853,182	% 26.62	Xiphophorus maculatus	19.6X	1303070	RecipBest	1.842%	5000	loose
95	gasAcu1	23	463,354,448	446,627,861	16,726,587	% 2.58	Stickleback	6X	20083130	Net	1.916%	5000	loose
96	gadMor1	427,428	824,327,835	608,038,555	216,289,280	% 31.25	Atlantic cod	40X	393166	in progress	N/A	1000	N/A
97	danRer7	1,133	1,412,464,843	1,409,770,109	2,694,734	% 52.06	Zebrafish	30X	54093808	Net	2.790%	5000	loose
98	astMex1	10,736	1,191,259,254	964,251,514	227,007,740	% 39.11	Astyanax mexicanus	70X	1775308	N/A	N/A	1000	N/A
99	lepOcu1	1,925	945,874,548	869,414,359	76,460,189	% 24.85	Lepisosteus oculatus	677.5X	50348508	N/A	N/A	1000	N/A
100	petMar2	25,006	885,550,958	647,368,134	238,182,824	% 42.47	Lamprey	5.0X	184619	Net	1.046%	5000	loose