Mm10 Genome size statistics

see also

• Mouse 60-way Mm10 conservation alignment
• Mouse 60-way Mm10 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 mm10 matched (chainLink table)	chain minScore	chain linearGap
01	mm10	66	2,730,871,774	2,652,783,500	78,088,274	% 45.18	Mouse	20X	130694993	N/A	N/A	N/A	N/A
02	rn4	45	2,834,127,293	2,566,294,765	267,832,528	% 44.29	Rat	20X	143002779	SyntenicNet	54.645%	5000	medium
03	speTri2	12,483	2,478,393,770	2,311,060,300	167,333,470	% 36.27	Squirrel	495X	8192786	SyntenicNet	34.217%	3000	medium
04	micMur1	185,042	2,902,270,736	1,852,394,361	1,049,876,375	% 37.31	Mouse lemur	2X	140884	RecipBest	26.636%	3000	medium
05	dipOrd1	210,053	2,158,502,098	1,844,961,421	313,540,677	% 28.28	Kangaroo rat	2X	36427	RecipBest	19.460%	3000	medium
06	saiBol1	2,685	2,608,572,064	2,477,131,095	131,440,969	% 46.69	Squirrel monkey	80X	18744880	SyntenicNet	32.339%	3000	medium
07	hetGla1	39,267	2,643,978,223	2,430,064,805	213,913,418	% 32.64	Naked mole-rat	90X	1603177	SyntenicNet	32.163%	3000	medium
08	hg19	93	3,137,161,264	2,897,310,462	239,850,802	% 50.63	Human	20X	146364022	SyntenicNet	38.226%	3000	medium
09	gorGor3	46,823	3,029,553,646	2,822,760,080	206,793,566	% 48.80	Gorilla	2.1X	145327772	SyntenicNet	33.987%	3000	medium
10	panTro4	24,129	3,309,577,922	2,902,338,967	407,238,955	% 51.29	Chimp	6X	143986469	SyntenicNet	34.674%	3000	medium
11	nomLeu1	17,968	2,936,035,333	2,756,591,777	179,443,556	% 50.82	Gibbon	5.6X	22692035	SyntenicNet	34.132%	3000	medium
12	ponAbe2	55	3,446,771,396	3,093,543,172	353,228,224	% 50.89	Orangutan	6X	135191526	SyntenicNet	34.496%	3000	medium
13	tarSyr1	656,709	3,179,905,132	2,768,536,343	411,368,789	% 41.75	Tarsier	2X	12214	RecipBest	24.560%	3000	medium
14	rheMac3	34,103	2,969,988,180	2,639,145,830	330,842,350	% 48.54	Chinese rhesus	50X	150158102	SyntenicNet	33.931%	3000	medium
15	papHam1	387,374	2,867,564,654	2,741,849,051	125,715,603	% 48.70	Baboon	5.3X	88525	RecipBest	33.577%	3000	medium
16	otoGar3	7,793	2,519,724,550	2,359,530,453	160,194,097	% 39.51	Bushbaby	137X	13852661	SyntenicNet	29.795%	3000	medium
17	calJac3	14,205	2,914,958,544	2,752,505,800	162,452,744	% 47.71	Marmoset	6X	132174527	SyntenicNet	32.450%	3000	medium
18	equCab2	34	2,484,532,062	2,428,790,173	55,741,889	% 40.97	Horse	6.8X	91571448	SyntenicNet	34.415%	3000	medium
19	cavPor3	3,144	2,723,219,641	2,663,369,733	59,849,908	% 27.53	Guinea pig	6.76X	27942054	SyntenicNet	28.447%	3000	medium
20	vicPac1	298,413	2,962,253,608	1,922,910,435	1,039,343,173	% 32.24	Alpaca	2X	230521	RecipBest	22.636%	3000	medium
21	turTru1	116,467	2,519,048,486	2,298,444,090	220,604,396	% 43.86	Dolphin	2X	166056	RecipBest	28.761%	3000	medium
22	tupBel1	150,851	3,660,774,957	2,137,225,476	1,523,549,481	% 20.43	Tree shrew	2X	127888	RecipBest	19.766%	3000	medium
23	susScr2	20	2,262,501,571	2,231,298,548	31,203,023	% 42.41	Pig	24X	134541103	SyntenicNet	23.248%	3000	medium
24	oryCun2	3,242	2,737,490,501	2,604,023,284	133,467,217	% 43.74	Rabbit	6.51X	111795807	SyntenicNet	25.248%	3000	medium
25	choHof1	481,259	2,458,927,620	2,060,419,685	398,507,935	% 35.67	Sloth	2X	9667	RecipBest	18.019%	3000	medium
26	triMan1	6,323	3,103,808,406	2,769,099,677	334,708,729	% 36.24	Manatee	150X	14442683	SyntenicNet	26.546%	3000	medium
27	pteVam1	96,944	1,996,076,410	1,839,436,660	156,639,750	% 31.75	Megabat	2X	124060	RecipBest	27.345%	3000	medium
28	felCat4	104,054	3,160,303,948	1,990,635,005	1,169,668,943	% 40.58	Cat	2.8X	164876586	RecipBest	24.033%	3000	medium
29	ailMel1	81,467	2,299,509,015	2,245,312,831	54,196,184	% 38.96	Panda	73X	1281781	SyntenicNet	30.979%	3000	medium
30	canFam3	3,268	2,410,976,875	2,392,715,236	18,261,639	% 43.01	Dog	7.6X	63241923	SyntenicNet	29.144%	3000	medium
31	loxAfr3	2,353	3,196,760,833	3,118,565,340	78,195,493	% 47.63	Elephant	7X	46401353	SyntenicNet	25.823%	3000	medium
32	dasNov2	292,141	4,813,823,562	2,371,493,872	2,442,329,690	% 37.23	Armadillo	2X	55360	RecipBest	17.004%	3000	medium
33	myoLuc2	11,654	2,034,575,300	1,966,419,868	68,155,432	% 33.71	Microbat	2.18X	4293315	SyntenicNet	24.363%	3000	medium
34	bosTau7	11,692	2,981,119,579	2,804,673,174	176,446,405	% 49.56	Cow	7.1X	85119472	SyntenicNet	26.255%	3000	medium
35	oviAri1	1,218	2,860,512,983	1,201,271,277	1,659,241,706	% 20.52	Sheep	3X	100831284	RecipBest	15.341%	3000	medium
36	ochPri2	187,558	3,445,784,354	1,923,624,051	1,522,160,303	% 11.44	Pika	2X	88760	RecipBest	14.542%	3000	medium
37	proCap1	295,006	2,985,258,999	2,407,847,681	577,411,318	% 28.11	Rock hyrax	2X	24297	RecipBest	15.147%	3000	medium
38	eriEur1	379,802	3,367,787,358	2,133,134,836	1,234,652,522	% 50.89	Hedgehog	2X	33565	RecipBest	9.856%	3000	medium
39	echTel1	325,491	3,823,724,728	2,111,581,369	1,712,143,359	% 13.84	Tenrec	2X	48377	RecipBest	10.947%	3000	medium
40	sorAra1	262,057	2,936,119,008	1,832,864,697	1,103,254,311	% 39.07	Shrew	2X	47941	RecipBest	9.382%	3000	medium
41	macEug2	277,711	3,075,184,024	2,536,076,954	539,107,070	% 47.39	Wallaby	2X	36602	RecipBest	4.353%	3000	medium
42	monDom5	11	3,605,631,728	3,501,660,299	103,971,429	% 55.95	Opossum	6.8X	527952102	Net	9.584%	5000	loose
43	sarHar1	35,974	3,174,693,010	2,931,539,702	243,153,308	% 39.66	Tasmanian devil	85X	1847106	Net	8.479%	5000	loose
44	melUnd1	25,212	1,117,373,619	1,086,614,815	30,758,804	% 19.62	Budgerigar	7X	10614383	Net	3.589%	5000	loose
45	ornAna1	201,523	1,996,811,212	1,842,235,522	154,575,690	% 47.89	Platypus	6X	991605	Net	5.348%	5000	loose
46	chrPic1	80,984	2,589,745,704	2,158,289,746	431,455,958	% 31.20	Painted turtle	15X	5212367	Net	4.731%	5000	loose
47	galGal4	15,932	1,046,932,099	1,032,854,810	14,077,289	% 20.41	Chicken	12X	90216835	Net	3.676%	5000	loose
48	taeGut1	70	1,233,186,341	1,222,864,691	10,321,650	% 20.42	Zebra finch	6X	73657157	Net	3.599%	5000	loose
49	anoCar2	6,457	1,799,143,587	1,701,353,767	97,789,820	% 41.98	Lizard	7.1X	150641573	Net	3.331%	5000	loose
50	melGal1	5,891	1,061,817,101	935,922,386	125,894,715	% 6.60	Turkey	5X	74864452	Net	3.511%	5000	loose
51	xenTro3	19,550	1,511,735,326	1,358,334,882	153,400,444	% 24.55	X. tropicalis	7.65X	1567461	Net	3.125%	5000	loose
52	latCha1	22,819	2,860,591,921	2,183,592,768	676,999,153	% 45.68	Coelacanth	77.5X	924513	Net	2.715%	5000	loose
53	gadMor1	427,428	824,327,835	608,038,555	216,289,280	% 31.25	Atlantic cod	40X	393166	Net	1.726%	5000	loose
54	oreNil1	5,901	927,742,539	816,084,674	111,657,865	% 25.51	Nile tilapia	269X	2802423	Net	1.957%	5000	loose
55	gasAcu1	23	463,354,448	446,627,861	16,726,587	% 2.58	Stickleback	6X	20083130	Net	2.016%	5000	loose
56	fr3	6,835	391,484,715	350,961,831	40,522,884	% 19.01	Fugu	8.5X	11516971	Net	1.789%	5000	loose
57	tetNig2	27	358,618,246	302,314,788	56,303,458	% 20.27	Tetraodon	7.9X	13390619	Net	1.735%	5000	loose
58	danRer7	1,133	1,412,464,843	1,409,770,109	2,694,734	% 52.06	Zebrafish	30X	54093808	Net	2.602%	5000	loose
59	oryLat2	7,189	869,000,216	700,386,597	168,613,619	% 33.09	Medaka	10.6X	29908082	Net	1.936%	5000	loose
60	petMar1	108,241	1,027,258,967	831,696,438	195,562,529	% 40.67	Lamprey	5.9X	14239	Net	1.101%	5000	loose