Table 6

Database content

Entropy distance: consensus and each method


Genome

Version

Source*

Size

IsoF

GC-P

BASIO

L-S

GC %


Bos taurus

Cow

bostau4-0

HGSC

2.5

0.3

1.9

0.3

2.0

41.8

Canis familiaris

Dog

canfam2

UCSC

2.5

0.3

1.3

0.3

1.2

41.3

Danio rerio

Zebrafish

danrer4

UCSC

1.5

0.4

2.1

0.4

2.3

36.5

Danio rerio

Zebrafish

danrer7

Ensembl

1.3

0.3

1.9

0.5

1.9

36.5

Drosophila melanogaster

Fruit fly

dm2

UCSC

0.13

0.4

1.7

0.4

1.8

42.2

Equus ferus caballus

Horse

equCab1

UCSC

2.0

0.3

1.4

0.3

1.4

41.5

Gallus gallus

Chicken

galgal3

UCSC

1.0

0.6

0.4

0.6

0.5

41.3

Gasterosteus aculeatus

Stickleback

gasAcu1

UCSC

0.45

0.3

1.9

0.3

1.9

44.6

Homo sapiens

Human

hg17

UCSC

3.0

0.3

0.3

0.6

0.3

40.9

Homo sapiens

Human

hg18

UCSC

3.0

0.3

1.2

0.4

1.2

40.9

Mus musculus

Mouse

mm8

UCSC

2.6

0.3

1.0

0.6

1.1

41.8

Mus musculus

Mouse

mm9

UCSC

2.6

0.3

1.1

0.5

1.2

41.8

Monodelphis domestica

Opossum

monDom4

UCSC

3.4

1.0

1.4

0.9

1.4

37.8

Monodelphis domestica

Opossum

monDom5

Broad

3.4

1.1

1.4

0.9

1.4

37.8

Ornithorhynchus anatinus

Platypus

ornAna1

UCSC

0.43

0.4

1.7

0.3

1.8

45.1

Oryzias latipes

Medeka

oryLat1

UCSC

0.58

0.4

2.1

0.3

2.2

40.5

Pan troglodytes

Chimpanzee

pantro2

UCSC

3.1

0.2

1.6

0.3

1.7

40.7

Macaca mulatta

Macaque

rheMac2

UCSC

2.7

0.3

1.8

0.3

2.1

40.6

Rattus norvegicus

Rat

rn4

UCSC

2.7

0.3

1.9

0.3

2.1

41.9

Tetraodon nigroviridis

Pufferfish

tetNig1

UCSC

0.2

0.3

1.7

0.3

1.7

45.8


*Genome downloaded from: UCSC, University of California Santa Cruz Genome Browser; HGSC, Human Genome Sequencing Center at Baylor College of Medicine; Broad, The Broad Institute; Ensembl, Ensembl genome database. Genome size in gigabytes, without unassembled parts. IsoF, IsoFinder; GC-P, GC-Profile; L-S, least-squares.

Schmidt and Frishman Genome Biology 2008 9:R104   doi:10.1186/gb-2008-9-6-r104

Open Data