Table 1 The asymmetry pattern of A↔G and C↔T iSNPs and FFD SNPs
Substitution type | A→G | T→C | G→A | C→T | Total |
|---|---|---|---|---|---|
iSNP | |||||
Non-CpG site | 1411 (19.5%) | 1030 (14.2%) | 1200 (16.6%) | 1052 (14.5%) | 4693 (64.8%) |
CpG site | 678 (9.4%) | 561 (7.8%) | 664 (9.2%) | 643 (8.9%) | 2546 (35.3%) |
Non-CpG vs. CpG* | χ2 = 3.2, v = 1, p = 0.074 | χ2 = 2.1, v = 1, p = 0.151 | |||
Total | 2089 (28.9%) | 1591 (22.0%) | 1864 (25.8%) | 1695 (23.4%) | 7239 (100%) |
FFD SNPs | |||||
Non-CpG site | 148(6.2%) | 127(5.3%) | 207(8.7%) | 307(12.9%) | 789(33.2%) |
CpG site | 316(13.3%) | 163(6.9%) | 654(27.5%) | 452(19.0%) | 1585(66.8%) |
Non-CpG vs. CpG* | χ2 = 10.9, v = 1, p = 0.001 | χ2 = 50.1, v = 1, p < 0.001 | |||
Total | 464(19.5%) | 290(12.2%) | 861(36.3%) | 759(32.0%) | 2374(100.0%) |