Hg19 Genome size statistics

From genomewiki
Revision as of 16:58, 13 May 2009 by Hiram (talk | contribs) (initial table contents)
Jump to navigationJump to search

see also

statistics collected from UCSC 2bit files

  • 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
  • % 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 % of hg19
matched
(chainLink table)
alignment type
01hg1993 3,137,161,2642,897,310,462 239,850,802% 50.63 HumanN/A N/A
02panTro252 3,350,447,5122,909,246,738 441,200,774% 48.90 Chimp94.846% SyntenicNet
03gorGor1609,861 2,323,645,8952,043,974,660 279,671,235% 47.27 Gorilla59.484% MafNet
04ponAbe255 3,446,771,3963,093,543,172 353,228,224% 50.89 OrangutanN/A N/A
05rheMac222 2,864,106,0712,646,668,809 217,437,262% 48.28 RhesusN/A N/A
06 papHam1to be done
07calJac149,724 3,029,401,8402,929,124,957 100,276,883% 47.50 MarmosetN/A N/A
08otoGar1120,882 3,420,058,8641,969,052,059 1,451,006,805% 34.89 BushbabyN/A N/A
09micMur1185,042 2,902,270,7361,852,394,361 1,049,876,375% 37.31 Mouse lemurN/A N/A
10tupBel1150,851 3,660,774,9572,137,225,476 1,523,549,481% 20.43 TreeShrewN/A N/A
11sorAra1262,057 2,936,119,0081,832,864,697 1,103,254,311% 39.07 ShrewN/A N/A
12mm935 2,725,765,4812,620,345,972 105,419,509% 44.09 MouseN/A MafNet
13rn445 2,834,127,2932,566,294,765 267,832,528% 44.29 RatN/A N/A
14speTri1160,889 3,488,768,5921,913,367,893 1,575,400,699% 26.90 SquirrelN/A N/A
15cavPor33,144 2,723,219,6412,663,369,733 59,849,908% 27.53 Guinea PigN/A N/A
16oryCun1215,471 3,464,410,0392,076,044,328 1,388,365,711% 37.44 RabbitN/A N/A
17ochPri2187,558 3,445,784,3541,923,624,051 1,522,160,303% 11.44 PikaN/A N/A
18eriEur1379,802 3,367,787,3582,133,134,836 1,234,652,522% 50.89 HedgehogN/A N/A
19felCat3217,790 4,045,535,3221,642,698,377 2,402,836,945% 37.66 CatN/A N/A
20canFam241 2,531,673,9532,384,996,543 146,677,410% 40.63 DogN/A in progress
21equCab234 2,484,532,0622,428,790,173 55,741,889% 40.97 HorseN/A N/A
22vicPac1298,413 2,962,253,6081,922,910,435 1,039,343,173% 32.24 AlpacaN/A N/A
23pteVam196,944 1,996,076,4101,839,436,660 156,639,750% 31.75 MegabatN/A N/A
24myoLuc1193,323 2,850,051,5591,673,855,868 1,176,195,691% 24.90 MicrobatN/A N/A
25turTru1116,467 2,519,048,4862,298,444,090 220,604,396% 43.86 DolphinN/A N/A
26bosTau411,900 2,917,974,5302,731,813,236 186,161,294% 46.89 CowN/A N/A
27choHof1481,259 2,458,927,6202,060,419,685 398,507,935% 35.67 SlothN/A N/A
28tarSyr1656,709 3,179,905,1322,768,536,343 411,368,789% 41.75 TarsierN/A N/A
29dipOrd1210,053 2,158,502,0981,844,961,421 313,540,677% 28.28 Kangaroo ratN/A N/A
30proCap1295,006 2,985,258,9992,407,847,681 577,411,318% 28.11 Rock hyraxN/A N/A
31macEug1616,418 2,944,879,1062,541,767,336 403,111,770% 36.24 WallabyN/A N/A
32dasNov1304,391 3,856,777,3642,146,362,222 1,710,415,142% 30.94 ArmadilloN/A N/A
33echTel1325,491 3,823,724,7282,111,581,369 1,712,143,359% 13.84 TenrecN/A N/A
34loxAfr2225,378 4,170,414,8522,444,975,542 1,725,439,310% 44.13 ElephantN/A N/A
35dasNov2292,141 4,813,823,5622,371,493,872 2,442,329,690% 37.23 ArmadilloN/A N/A
36monDom511 3,605,631,7283,501,660,299 103,971,429% 55.95 OpossumN/A N/A
37ornAna1201,523 1,996,811,2121,842,235,522 154,575,690% 47.89 PlatypusN/A N/A
38galGal357 1,100,480,4411,042,583,135 57,897,306% 9.85 ChickenN/A in progress
39taeGut170 1,233,186,3411,222,864,691 10,321,650% 20.42 Zebra finchN/A N/A
40anoCar17,233 1,781,602,8991,741,478,929 40,123,970% 42.56 LizardN/A N/A
41xenTro219,759 1,513,925,4921,359,400,017 154,525,475% 19.65 X. tropicalisN/A N/A
42danRer55,036 1,440,582,3081,435,595,672 4,986,636% 49.53 ZebrafishN/A N/A
43tetNig127 402,240,326312,394,419 89,845,907% 4.34 TetraodonN/A N/A
44fr22 400,525,790351,212,245 49,313,545% 19.01 FuguN/A N/A
45gasAcu123 463,354,448446,627,861 16,726,587% 2.58 SticklebackN/A N/A
46oryLat27,189 869,000,216700,386,597 168,613,619% 33.09 MedakaN/A N/A
47petMar1108,241 1,027,258,967831,696,438 195,562,529% 40.67 LampreyN/A N/A