Figure 2.

Increase in non-CpG substitution rates during the S phase. (A) Substitution rate and replication timing profiles along human chromosome 17. (B) Global substitution rate (all panels). GC fixed: (black) GC ≤ 37%; (blue) 37% < GC ≤ 42%; (orange) 42% < GC ≤ 52%; (red) GC > 52%. CO fixed: (black) CO ≤ 1 cM/Mb; (blue) 1 < CO ≤ 2 cM/Mb; (orange) 2 < CO ≤ 4 cM/Mb; (red) CO > 4 cM/Mb; DT fixed: (black) DT > 50 Mb; (blue) 30 < DT ≤ 50 Mb; (orange) 10 < DT ≤ 30 Mb; (red) DT ≤ 10 Mb. In the abscissa, S50 determined in 100-kb windows (Methods) is shown. In the ordinate, the mean value of the substitution rate ± SEM in percent is shown. The distance between the lines shows dependency on the controlling factor. (C) Individual substitution rates when controlling for CO. Colors are as in B. S → W and W → W rates show moderate dependency on CO. In contrast, W → S rates, and to a lesser extent S → S, depend strongly on CO.