Hg19 Genome size statistics

see also

• Hg19 conservation alignment
• Hg19 conservation lastz parameters
• Hg18 44way alignment
• Hg18 44way blastz parameters
• Hg18 genome size statistics

statistics collected from UCSC 2bit files

• The external links from the UCSC database name go to the sequencing center information pages for this 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 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
• % masked == masked either with WindowMasker or RepeatMasker plus TRF simple repeats
• % of hg19 matched (chainLink table) == featureBits hg19 chain<Db>Link == alignment coverage

do not edit, automatically generated table

order count	ucsc db name	chrom count	total size	non-N bases	N base count	% masked	common name	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	panTro2	52	3,350,447,512	2,909,246,738	441,200,774	% 48.90	Chimp	6X	145085868	SyntenicNet	94.846%	5000	medium
03	gorGor1	609,861	2,323,645,895	2,043,974,660	279,671,235	% 47.27	Gorilla	2X	11278	RecipBest	59.484%	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	rheMac2	22	2,864,106,071	2,646,668,809	217,437,262	% 48.28	Rhesus	5.1X	153947521	SyntenicNet	82.744%	5000	medium
06	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
07	calJac1	49,724	3,029,401,840	2,929,124,957	100,276,883	% 47.50	Marmoset	6X	303154	RecipBest	70.860%	5000	medium
08	tarSyr1	656,709	3,179,905,132	2,768,536,343	411,368,789	% 41.75	Tarsier	2X	12214	RecipBest	47.830%	3000	medium
09	micMur1	185,042	2,902,270,736	1,852,394,361	1,049,876,375	% 37.31	Mouse lemur	2X	140884	RecipBest	46.519%	3000	medium
10	otoGar1	120,882	3,420,058,864	1,969,052,059	1,451,006,805	% 34.89	Bushbaby	2X	139426	RecipBest	43.644%	3000	medium
11	equCab2	34	2,484,532,062	2,428,790,173	55,741,889	% 40.97	Horse	6.8X	91571448	SyntenicNet	57.050%	3000	medium
12	tupBel1	150,851	3,660,774,957	2,137,225,476	1,523,549,481	% 20.43	Tree shrew	2X	127888	RecipBest	36.156%	3000	medium
13	turTru1	116,467	2,519,048,486	2,298,444,090	220,604,396	% 43.86	Dolphin	2X	166056	RecipBest	48.398%	3000	medium
14	speTri1	160,889	3,488,768,592	1,913,367,893	1,575,400,699	% 26.90	Squirrel	2X	97483	RecipBest	35.713%	3000	medium
15	vicPac1	298,413	2,962,253,608	1,922,910,435	1,039,343,173	% 32.24	Alpaca	2X	230521	RecipBest	39.399%	3000	medium
16	choHof1	481,259	2,458,927,620	2,060,419,685	398,507,935	% 35.67	Sloth	2X	9667	RecipBest	34.377%	3000	medium
17	pteVam1	96,944	1,996,076,410	1,839,436,660	156,639,750	% 31.75	Megabat	2X	124060	RecipBest	45.414%	3000	medium
18	loxAfr3	2,353	3,196,760,833	3,118,565,340	78,195,493	% 47.63	Elephant	7X	46401353	SyntenicNet	46.636%	3000	medium
19	felCat3	217,790	4,045,535,322	1,642,698,377	2,402,836,945	% 37.66	Cat	2X	117081	RecipBest	35.713%	3000	medium
20	canFam2	41	2,531,673,953	2,384,996,543	146,677,410	% 40.63	Dog	7.6X	67211953	SyntenicNet	52.879%	3000	medium
21	dasNov2	292,141	4,813,823,562	2,371,493,872	2,442,329,690	% 37.23	Armadillo	2X	55360	RecipBest	33.543%	3000	medium
22	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
23	myoLuc1	193,323	2,850,051,559	1,673,855,868	1,176,195,691	% 24.90	Microbat	2X	97555	RecipBest	33.174%	3000	medium
24	bosTau4	11,900	2,917,974,530	2,731,813,236	186,161,294	% 46.89	Cow	7.1X	85358539	SyntenicNet	46.506%	3000	medium
25	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
26	proCap1	295,006	2,985,258,999	2,407,847,681	577,411,318	% 28.11	Rock hyrax	2X	24297	RecipBest	30.864%	3000	medium
27	dipOrd1	210,053	2,158,502,098	1,844,961,421	313,540,677	% 28.28	Kangaroo rat	2X	36427	RecipBest	27.161%	3000	medium
28	ochPri2	187,558	3,445,784,354	1,923,624,051	1,522,160,303	% 11.44	Pika	2X	88760	RecipBest	27.768%	3000	medium
29	eriEur1	379,802	3,367,787,358	2,133,134,836	1,234,652,522	% 50.89	Hedgehog	2X	33565	RecipBest	19.362%	3000	medium
30	echTel1	325,491	3,823,724,728	2,111,581,369	1,712,143,359	% 13.84	Tenrec	2X	48377	RecipBest	23.120%	3000	medium
31	mm9	35	2,725,765,481	2,620,345,972	105,419,509	% 44.09	Mouse	20X	131738871	SyntenicNet	35.299%	3000	medium
32	rn4	45	2,834,127,293	2,566,294,765	267,832,528	% 44.29	Rat	20X	143002779	SyntenicNet	32.879%	3000	medium
33	sorAra1	262,057	2,936,119,008	1,832,864,697	1,103,254,311	% 39.07	Shrew	2X	47941	RecipBest	19.760%	3000	medium
34	macEug1	616,418	2,944,879,106	2,541,767,336	403,111,770	% 36.24	Wallaby	2X	16053	RecipBest	6.011%	3000	medium
35	monDom5	11	3,605,631,728	3,501,660,299	103,971,429	% 55.95	Opossum	6.8X	527952102	SyntenicNet	14.358%	5000	loose
36	ornAna1	201,523	1,996,811,212	1,842,235,522	154,575,690	% 47.89	Platypus	6X	991605	RecipBest	7.627%	5000	loose
37	galGal3	57	1,100,480,441	1,042,583,135	57,897,306	% 9.85	Chicken	6.6X	94230402	SyntenicNet	3.591%	5000	loose
38	taeGut1	70	1,233,186,341	1,222,864,691	10,321,650	% 20.42	Zebra finch	6X	73657157	SyntenicNet	3.496%	5000	loose
39	anoCar1	7,233	1,781,602,899	1,741,478,929	40,123,970	% 42.56	Lizard	6.8X	2439125	SyntenicNet	3.591%	5000	loose
40	xenTro2	19,759	1,513,925,492	1,359,400,017	154,525,475	% 19.65	X. tropicalis	7.65X	1564123	Net	3.176%	5000	loose
41	gasAcu1	23	463,354,448	446,627,861	16,726,587	% 2.58	Stickleback	6X	20083130	Net	1.916%	5000	loose
42	fr2	2	400,525,790	351,212,245	49,313,545	% 19.01	Fugu	8.5X	400509343	Net	1.702%	5000	loose
43	danRer6	11,724	1,512,402,306	1,506,876,822	5,525,484	% 51.69	Zebrafish	6.5X	50748729	Net	3.051%	5000	loose
44	tetNig2	27	358,618,246	302,314,788	56,303,458	% 20.27	Tetraodon	7.9X	13390619	Net	1.712%	5000	loose
45	oryLat2	7,189	869,000,216	700,386,597	168,613,619	% 33.09	Medaka	10.6X	29908082	Net	1.849%	5000	loose
46	petMar1	108,241	1,027,258,967	831,696,438	195,562,529	% 40.67	Lamprey	5.9X	14239	Net	1.082%	5000	loose