Table 1 List of species genomes analysed in the present study together with basic information on the genome assembly.

Daphnia pulex

197.3

40.8%

animal/arthropoda

Dappu v1.1 (dpulex_jgi060905)

http://genome.jgi-psf.org/Dappu1/Dappu1.home.html

Drosophila melanogaster

168.7

41.7%

animal/arthropoda

dmel_r5.5_FB2008_01

ftp://ftp.flybase.net/genomes

Apis mellifera

228.6

32.8%

animal/arthropoda

Amel_2.0

ftp://ftp.hgsc.bcm.tmc.edu/pub/data/Amellifera/fasta/Amel20050120-freeze

Apis mellifera

235.2

32.7%

animal/arthropoda

Amel_4.0

ftp://ftp.hgsc.bcm.tmc.edu/pub/data/Amellifera/fasta/Amel20060310-freeze

Caenorhabditis elegans

100.3

35.4%

animal/nematoda

CaeEle-WS160

ftp://ftp.wormbase.org/pub/wormbase/

Homo sapiens

3080.4

40.9%

animal/vertebrata

build 36.2

ftp://ftp.ncbi.nih.gov/genomes/

Mus musculus

2644.1

41.8%

animal/vertebrata

build 36.1

ftp://ftp.ncbi.nih.gov/genomes/

Gallus gallus

1031.9

41.3%

animal/vertebrata

build 2.1

ftp://ftp.ncbi.nih.gov/genomes/

Arabidobsis thaliana

119.2

36.0%

plant/magnoliophytha

build 6.0

ftp://ftp.ncbi.nih.gov/genomes/

Thalassiosira pseudonana

31.3

46.9%

stramopiles/bacillariophytha

v3.031306

http://genome.jgi-psf.org/Thaps3/

Ostreococcus lucimarinus

13.2

60.4%

viridiplantae/chlorophyta

v2.0

http://genome.jgi-psf.org/Ost9901_3/

Neurospora crassa

39.2

49.3%

fungi/ascomycota

release 7

http://www.broadinstitute.org/annotation/genome/neurospora/MultiHome.html

Saccharomyces cerevisiae

12.1

38.3%

fungi/ascomycota

build 2.1

ftp://ftp.ncbi.nih.gov/genomes/