Genome size statistics: Difference between revisions

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<LI>N bases == unknown bases in the assembly marked by 'N'</LI>
<LI>N bases == unknown bases in the assembly marked by 'N'</LI>
<LI>non-N bases == called bases in the assembly</LI>
<LI>non-N bases == called bases in the assembly</LI>
<LI>total size == all bases in assembly, N and non-N
<LI>total size == all bases in assembly, N and non-N</LI>
<LI>% masked == masked either with WindowMasker or RepeatMasker plus TRF simple repeats</LI>
</UL>
</UL>
==do not edit, automatically generated table==


<TABLE BORDER=1>
<TABLE BORDER=1>

Revision as of 19:34, 17 October 2008

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

do not edit, automatically generated table

order
count
ucsc
db name
chrom
count
total
size
non-N
bases
N base
count
% masked common name
01 hg1849 3,107,677,2732,881,421,696 226,255,577% 48.85 Human
02 panTro252 3,350,447,5122,909,246,738 441,200,774% 48.90 Chimp
03 gorGor1 to be done
04 ponAbe255 3,446,771,3963,093,543,172 353,228,224% 50.89 Orangutan
05 rheMac222 2,864,106,0712,646,668,809 217,437,262% 48.28 Rhesus
06 calJac149,724 3,029,401,8402,929,124,957 100,276,883% 47.50 Marmoset
07 tarSyr1656,709 3,179,905,1322,768,536,343 411,368,789% 41.75 Tarsier
08 otoGar1120,882 3,420,058,8641,969,052,059 1,451,006,805% 34.89 Bushbaby
09 micMur1185,042 2,902,270,7361,852,394,361 1,049,876,375% 37.31 Mouse lemur
10 tupBel1150,851 3,660,774,9572,137,225,476 1,523,549,481% 20.43 TreeShrew
11 mm935 2,725,765,4812,620,345,972 105,419,509% 44.09 Mouse
12 rn445 2,834,127,2932,566,294,765 267,832,528% 44.29 Rat
13 dipOrd1210,053 2,158,502,0981,844,961,421 313,540,677% 28.28 Kangaroo rat
14 cavPor33,144 2,723,219,6412,663,369,733 59,849,908% 27.53 Guinea Pig
15 speTri1160,889 3,488,768,5921,913,367,893 1,575,400,699% 26.90 Squirrel
16 oryCun1215,471 3,464,410,0392,076,044,328 1,388,365,711% 37.44 Rabbit
17 ochPri2187,558 3,445,784,3541,923,624,051 1,522,160,303% 11.44 Pika
18 sorAra1262,057 2,936,119,0081,832,864,697 1,103,254,311% 39.07 Shrew
19 eriEur1379,802 3,367,787,3582,133,134,836 1,234,652,522% 50.89 Hedgehog
20 felCat3217,790 4,045,535,3221,642,698,377 2,402,836,945% 37.66 Cat
21 canFam241 2,531,673,9532,384,996,543 146,677,410% 40.63 Dog
22 equCab234 2,484,532,0622,428,790,173 55,741,889% 40.97 Horse
23 pteVam196,944 1,996,076,4101,839,436,660 156,639,750% 31.75 Megabat
24 myoLuc1193,323 2,850,051,5591,673,855,868 1,176,195,691% 24.90 Microbat
25 turTru1116,467 2,519,048,4862,298,444,090 220,604,396% 43.86 Dolphin
26 bosTau411,900 2,917,974,5302,731,813,236 186,161,294% 46.89 Cow
27 vicPac1 to be done
28 dasNov2292,141 4,813,823,5622,371,493,872 2,442,329,690% 37.23 Armadillo
29 choHof1481,259 2,458,927,6202,060,419,685 398,507,935% 35.67 Sloth
30 echTel1325,491 3,823,724,7282,111,581,369 1,712,143,359% 13.84 Tenrec
31 loxAfr2225,378 4,170,414,8522,444,975,542 1,725,439,310% 44.13 Elephant
32 proCap1295,006 2,985,258,9992,407,847,681 577,411,318% 28.11 Rock hyrax
33 monDom410 3,605,614,6493,501,643,220 103,971,429% 55.69 Opossum
34 ornAna1201,523 1,996,811,2121,842,235,522 154,575,690% 47.89 Platypus
35 galGal357 1,100,480,4411,042,583,135 57,897,306% 9.85 Chicken
36 taeGut170 1,233,186,3411,222,864,691 10,321,650% 20.42 Zebra finch
37 anoCar17,233 1,781,602,8991,741,478,929 40,123,970% 42.56 Lizard
38 xenTro219,759 1,513,925,4921,359,400,017 154,525,475% 19.65 X. tropicalis
39 danRer55,036 1,440,582,3081,435,595,672 4,986,636% 49.53 Zebrafish
40 tetNig127 402,240,326312,394,419 89,845,907% 4.34 Tetraodon
41 fr22 400,525,790351,212,245 49,313,545% 19.01 Fugu
42 gasAcu123 463,354,448446,627,861 16,726,587% 2.58 Stickleback
43 oryLat27,189 869,000,216700,386,597 168,613,619% 33.09 Medaka
44 petMar1108,241 1,027,258,967831,696,438 195,562,529% 40.67 Lamprey