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Table 2 Basic statistics of CpGcluster and CpGProD islands

From: CpGcluster: a distance-based algorithm for CpG-island detection

 

hg17

mm7

 

CpGcluster

CpGproD

CpGcluster

CpGproD

Genome length (without N-runs, bp)

2.85E + 09

2.85E + 09

2.51E + 09

2.51E + 09

Total number of CpGs

28,073,991

28,073,991

20,967,593

20,967,593

CpG-dinucleotides in CpG-islands (%)

4,489,575 (15.99)

4,323,799 (15.40)

2,708,986 (12.92)

2,215,608 (10.57)

Number of islands predicted

197,727

76,793

117,373

40,171

*Island coverage (%)

1.90

2.81

1.47

1.65

Island length (bp):

    

Average

273.5 ± 246.7

1043.8 ± 761.7

314.0 ± 293.8

1030.3 ± 560.0

Minimum

8

500

8

500

Maximum

7,774

42,276

5,618

9,288

Average island GC-content (%)

63.76 ± 7.51

54.58 ± 6.12

61.58 ± 10.03

54.62 ± 5.17

Average CpG O/E ratio

0.855 ± 0.265

0.636 ± 0.089

0.956 ± 0.428

0.652 ± 0.103

Average CpG-density

0.087 ± 0.041

0.047 ± 0.016

0.097 ± 0.084

0.048 ± 0.015

  1. *Percentage of the genome covered by the CpG-islands.
  2. Basic statistics of the CpG-islands predicted by CpGcluster and CpGProD in the human (hg17) and mouse genomes (mm7).