Fig. 3.

(a) Alignment of the putative nicking sites and the flanking 8 bp repeats (underlined) of pMEA300, pMEA100, pSE211, pSE101, pSE102, and the AICE remnant Sare1208 (b) Secondary structures of the hairpins of pMEA300, pMEA100, pSE211, pSE101, pSE102, and the AICE remnant Sare1208, as predicted by mfold (Zuker 2003). The conserved 8 bp repeats are outlined by bars. The black arrows indicate the putative nicking sites, which are located in ssDNA regions. Black star indicates 1 bp mismatch in 8 bp repeat of Sare1208. Figure 3 was adapted from te Poele et al. (2006)