Table 1.
Cluster composition features
| % CpG (n) | % CpA (n) | % CpT (n) | % CpC (n) | tot CpN % (n) | CpC/non-CpC ratio | Number of CpN (% density) | % CpC (n) | CpC/non-CpC ratio | |
| sng-C | 64.3 (9) | 7.1 (1) | 7.1 (1) | 21.4 (3) | 100 (14) | 0.27 | n.d. | 21.4 (3) | 0.27 |
| cluster 6 | 0.0 (0) | 50.0 (2) | 25.0 (1) | 25.0 (1) | 100 (4) | 0.33 | 1 CpC (6.3%) 2 CpA (12.5%) 1 CpT (6.3%) |
48.1(13) | 0.93 |
| cluster 5 | 0.0 (0) | 40.0 (2) | 20.0 (1) | 40.0 (2) | 100 (5) | 0.67 | 2 CpC (22.2%) 1 CpA (11.1%) 1 CpT (11.1%) |
||
| cluster 3 | 0.0 (0) | 27.3 (3) | 18.2 (2) | 54.5 (6) | 100 (11) | 1.20 | 4 CpC (28.6%) 2CpA (15.4%) 2 CpT (15.4%) |
||
| cluster 4 | 0.0 (0) | 28.6 (2) | 14.3 (1) | 57.1 (4) | 100 (7) | 1.33 | 4 CpC (30.8%) 2CpA (15.4%) 1 CpT (7.7%) |
||
| cluster 2 | 0.0 (0) | 25.9 (7) | 14.8 (4) | 59.3 (16) | 100 (27) | 1.45 | 14 CpC (35.9%) 6 CpA (15.4%) 4 CpT (10.3%) |
60.5 (26) | 1.53 |
| cluster 1 | 0.0 (0) | 12.5 (2) | 25.0 (4) | 62.5 (10) | 100 (16) | 1.67 | 9 CpC (50.0%) 4 CpT (22.2%) |
||
| overall 5′ | 10.7 (9) | 22.6 (19) | 16.7 (14) | 50.0 (42) | 100 (84) | 1.00 | 34 CpC (31.2%) 13 CpA (11.9%) 13 CpT (11.9%) |
100.0 (42) | 1.00 |
The percentage of CpN of each cluster, of the sng-C and of the overall 5′-flanking region (indicated as overall 5′) are shown. The differences in CpN composition are all highly significant (χ2 = 55.2, performed on absolute values, p < 0.001). The cumulative percentages of the CpC content and the CpC to non-CpC ratio of each cluster and of sng-C after grouping of the slow (3–6) and fast (1 and 2) demethylating clusters are also shown. The corresponding number of C moieties is shown in parentheses (n). The CpN number and density are also reported; CpN density was calculated as the percentage of each CpN compared with the overall number of nucleotides included in the corresponding adj-C group. Clusters and sng-C are reported in increasing order of CpC content.