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Table 1 Statistics and distribution of CGIs and CGCs in the human (NCBI build 36) and mouse genomes (NCBI build 37)

From: CpG islands or CpG clusters: how to identify functional GC-rich regions in a genome?

 

Human

Mouse

 

CGIs (%a)

CGCs (%a)

CGIs (%a)

CGCs (%a)

Genome length (bp)

2.86 × 109

2.86 × 109

2.61 × 109

2.61 × 109

# CGIs/CGCs

37,729

198,702

21,326

121,885

Coverage (%)b

1.44

1.90

0.85

1.48

Length (bp)

1,090 ± 717

273 ± 246

1,045 ± 519

318 ± 297

GC content (%)

60.61 ± 5.06

63.78 ± 7.50

60.0 ± 4.0

61.4 ± 10.0

ObsCpG/ExpCpG

0.717 ± 0.082

0.855 ± 0.265

0.730 ± 0.093

0.949 ± 0.426

Promoter regions

13,196 (35.0)

29,156 (14.7)

10,942 (51.3)

19,791 (16.2)

TSSs

15,106 (40.0)

21,741 (10.9)

12,175 (57.1)

16,675 (13.7)

Genic regions

24,841 (65.8)

104,924 (52.8)

15,541 (72.9)

63,555 (52.1)

Intergenic regions

12,888 (34.2)

93,778 (47.2)

5,785 (27.1)

58,330 (47.9)

8-bp CGCs

    

   Sub-total

 

232

 

775

   Promoter regions

 

12 (5.2c)

 

13 (1.7c)

   Intergenic regions

 

144 (62.1c)

 

439 (56.6c)

  1. aProportion (%) of CGIs or CGCs in the genomic region over the total number of CGIs or CGCs in the genome.
  2. bProportion (%) of the genome sequence covered by CGIs or CGCs.
  3. cProportion (%) of the CGCs in the promoter regions or intergenic regions among the total 8-bp CGCs.
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BMC Bioinformatics

ISSN: 1471-2105

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