Mm10 Genome size statistics

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see also

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
01mm10 66 2,730,871,7742,652,783,500 78,088,274% 45.18 Mouse20X 130694993 N/AN/A N/A N/A
02rn5 2,739 2,909,698,9382,572,853,723 336,845,215% 42.81 Rat6X 154597545 SyntenicNet67.353% 5000 medium
03speTri2 12,483 2,478,393,7702,311,060,300 167,333,470% 36.27 Squirrel495X 8192786 SyntenicNet34.217% 3000 medium
04dipOrd1 210,053 2,158,502,0981,844,961,421 313,540,677% 28.28 Kangaroo rat2X 36427 RecipBest19.460% 3000 medium
05hetGla2 4,229 2,618,204,6392,314,771,103 303,433,536% 32.31 Naked mole rat90X 20532749 SyntenicNet32.753% 3000 medium
06cavPor3 3,144 2,723,219,6412,663,369,733 59,849,908% 27.53 Guinea pig6.76X 27942054 SyntenicNet28.447% 3000 medium
07oryCun2 3,242 2,737,490,5012,604,023,284 133,467,217% 43.74 Rabbit6.51X 111795807 SyntenicNet25.248% 3000 medium
08ochPri2 187,558 3,445,784,3541,923,624,051 1,522,160,303% 11.44 Pika2X 88760 RecipBest14.542% 3000 medium
09tupBel1 150,851 3,660,774,9572,137,225,476 1,523,549,481% 20.43 Tree shrew2X 127888 RecipBest19.766% 3000 medium
10hg19 93 3,137,161,2642,897,310,462 239,850,802% 50.63 Human20X 146364022 SyntenicNet38.226% 3000 medium
11gorGor3 46,823 3,029,553,6462,822,760,080 206,793,566% 48.80 Gorilla2.1X 145327772 SyntenicNet33.987% 3000 medium
12panTro4 24,129 3,309,577,9222,902,338,967 407,238,955% 51.29 Chimp6X 143986469 SyntenicNet34.674% 3000 medium
13nomLeu2 17,976 2,936,052,6032,756,609,047 179,443,556% 51.44 Gibbon5.6X 22692035 SyntenicNet34.031% 3000 medium
14ponAbe2 55 3,446,771,3963,093,543,172 353,228,224% 50.89 Orangutan6X 135191526 SyntenicNet34.496% 3000 medium
15tarSyr1 656,709 3,179,905,1322,768,536,343 411,368,789% 41.75 Tarsier2X 12214 RecipBest24.560% 3000 medium
16rheMac3 34,103 2,969,988,1802,639,145,830 330,842,350% 48.54 Chinese rhesus50X 150158102 SyntenicNet33.931% 3000 medium
17papHam1 387,374 2,867,564,6542,741,849,051 125,715,603% 48.70 Baboon5.3X 88525 RecipBest33.577% 3000 medium
18otoGar3 7,793 2,519,724,5502,359,530,453 160,194,097% 39.51 Bushbaby137X 13852661 SyntenicNet29.795% 3000 medium
19calJac3 14,205 2,914,958,5442,752,505,800 162,452,744% 47.71 Marmoset6X 132174527 SyntenicNet32.450% 3000 medium
20micMur1 185,042 2,902,270,7361,852,394,361 1,049,876,375% 37.31 Mouse lemur2X 140884 RecipBest26.636% 3000 medium
21saiBol1 2,685 2,608,572,0642,477,131,095 131,440,969% 46.69 Squirrel monkey80X 18744880 SyntenicNet32.339% 3000 medium
22equCab2 34 2,484,532,0622,428,790,173 55,741,889% 40.97 Horse6.8X 91571448 SyntenicNet34.415% 3000 medium
23vicPac1 298,413 2,962,253,6081,922,910,435 1,039,343,173% 32.24 Alpaca2X 230521 RecipBest22.636% 3000 medium
24turTru2 240,901 2,551,996,5732,332,402,443 219,594,130% 43.56 Dolphin3.5X 116261 RecipBest30.267% 3000 medium
25susScr3 4,583 2,808,525,9912,518,987,191 289,538,800% 44.30 Pig24X 148491826 SyntenicNet25.685% 3000 medium
26bosTau7 11,692 2,981,119,5792,804,673,174 176,446,405% 49.56 Cow7.1X 85119472 SyntenicNet26.255% 3000 medium
27oviAri1 1,218 2,860,512,9831,201,271,277 1,659,241,706% 20.52 Sheep3X 100831284 RecipBest15.341% 3000 medium
28pteVam1 96,944 1,996,076,4101,839,436,660 156,639,750% 31.75 Megabat2X 124060 RecipBest27.345% 3000 medium
29myoLuc2 11,654 2,034,575,3001,966,419,868 68,155,432% 33.71 Microbat2.18X 4293315 SyntenicNet24.363% 3000 medium
30felCat5 5,500 2,455,541,1362,364,296,207 91,244,929% 43.24 Cat12X 148491654 RecipBest29.725% 3000 medium
31canFam3 3,268 2,410,976,8752,392,715,236 18,261,639% 43.01 Dog7.6X 63241923 SyntenicNet29.144% 3000 medium
32ailMel1 81,467 2,299,509,0152,245,312,831 54,196,184% 38.96 Panda73X 1281781 SyntenicNet30.979% 3000 medium
33eriEur1 379,802 3,367,787,3582,133,134,836 1,234,652,522% 50.89 Hedgehog2X 33565 RecipBest9.856% 3000 medium
34sorAra1 262,057 2,936,119,0081,832,864,697 1,103,254,311% 39.07 Shrew2X 47941 RecipBest9.382% 3000 medium
35choHof1 481,259 2,458,927,6202,060,419,685 398,507,935% 35.67 Sloth2X 9667 RecipBest18.019% 3000 medium
36dasNov3 46,559 3,631,522,7113,299,882,028 331,640,683% 49.28 Armadillo6X 1687935 RecipBest25.201% 3000 medium
37proCap1 295,006 2,985,258,9992,407,847,681 577,411,318% 28.11 Rock hyrax2X 24297 RecipBest15.147% 3000 medium
38echTel1 325,491 3,823,724,7282,111,581,369 1,712,143,359% 13.84 Tenrec2X 48377 RecipBest10.947% 3000 medium
39triMan1 6,323 3,103,808,4062,769,099,677 334,708,729% 36.24 Manatee150X 14442683 SyntenicNet26.546% 3000 medium
40loxAfr3 2,353 3,196,760,8333,118,565,340 78,195,493% 47.63 Elephant7X 46401353 SyntenicNet25.823% 3000 medium
41macEug2 277,711 3,075,184,0242,536,076,954 539,107,070% 47.39 Wallaby2X 36602 RecipBest4.353% 3000 medium
42sarHar1 35,974 3,174,693,0102,931,539,702 243,153,308% 39.66 Tasmanian devil85X 1847106 Net8.479% 5000 loose
43monDom5 11 3,605,631,7283,501,660,299 103,971,429% 55.95 Opossum6.8X 527952102 Net9.584% 5000 loose
44ornAna1 201,523 1,996,811,2121,842,235,522 154,575,690% 47.89 Platypus6X 991605 Net5.348% 5000 loose
45galGal4 15,932 1,046,932,0991,032,854,810 14,077,289% 20.41 Chicken12X 90216835 Net3.676% 5000 loose
46taeGut1 70 1,233,186,3411,222,864,691 10,321,650% 20.42 Zebra finch6X 73657157 Net3.599% 5000 loose
47melGal1 5,891 1,061,817,101935,922,386 125,894,715% 6.60 Turkey5X 74864452 Net3.511% 5000 loose
48melUnd1 25,212 1,117,373,6191,086,614,815 30,758,804% 19.62 Budgerigar7X 10614383 Net3.589% 5000 loose
49anoCar2 6,457 1,799,143,5871,701,353,767 97,789,820% 41.98 Lizard7.1X 150641573 Net3.331% 5000 loose
50chrPic1 80,984 2,589,745,7042,158,289,746 431,455,958% 31.20 Painted turtle15X 5212367 Net4.731% 5000 loose
51xenTro3 19,550 1,511,735,3261,358,334,882 153,400,444% 24.55 X. tropicalis7.65X 1567461 Net3.125% 5000 loose
52latCha1 22,819 2,860,591,9212,183,592,768 676,999,153% 45.68 Coelacanth77.5X 924513 Net2.715% 5000 loose
53gadMor1 427,428 824,327,835608,038,555 216,289,280% 31.25 Atlantic cod40X 393166 Net1.726% 5000 loose
54gasAcu1 23 463,354,448446,627,861 16,726,587% 2.58 Stickleback6X 20083130 Net2.016% 5000 loose
55fr3 6,835 391,484,715350,961,831 40,522,884% 19.01 Fugu8.5X 11516971 Net1.789% 5000 loose
56oreNil2 5,678 927,696,114816,084,674 111,611,440% 25.51 Nile tilapia269X 27159252 Net1.957% 5000 loose
57tetNig2 27 358,618,246302,314,788 56,303,458% 20.27 Tetraodon7.9X 13390619 Net1.735% 5000 loose
58danRer7 1,133 1,412,464,8431,409,770,109 2,694,734% 52.06 Zebrafish30X 54093808 Net2.602% 5000 loose
59oryLat2 7,189 869,000,216700,386,597 168,613,619% 33.09 Medaka10.6X 29908082 Net1.936% 5000 loose
60petMar1 108,241 1,027,258,967831,696,438 195,562,529% 40.67 Lamprey5.9X 14239 Net1.101% 5000 loose
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