Table 2

Comparison of genomes used in the simulation study

Version Used for Statistics

Chrs

Scaffolds > 10Kbp

Genome Assembly Size

GC Content

Repeat Content


Arabidopsis thaliana

TAIR 9

5

5

119,146,348

35.97%

16.51%

Vitis vinifera

Genoscope 12X

19

19

486,198,630

33.41%

47.25%

Populus trichocarpa

JGI v2

19

794

417,137,944

32.57%

18.98%

Oryza sativa

MSU v6.1

12

12

372,317,567

43.55%

38.70%

Sorghum bicolor

JGI sb1

10

19

738,540,932

41.49%

63.12%

Zea mays

MGP 4a.53

10

10

2,061,021,377

46.60%

73.06%


Repeat fraction was determined by counting the fraction of masked nucleotides from http://www.phytozome.net webcite (V6.0) masked assemblies except for Ath1 which was taken from the Premasked Genome (araTha5) from http://www.repeatmasker.org/PreMaskedGenomes.html webcite.

Haiminen et al. BMC Genomics 2011 12:194   doi:10.1186/1471-2164-12-194

Open Data