Figure 2.

The customized substitution matrix. (a) Local query profile: the same symbol (e.g., 'A') at different position in query has same scores. (b) Position specific query profile: the same symbol (e.g., 'A') at different position in query has different scores.

Zhang et al. BMC Bioinformatics 2012 13(Suppl 5):S3   doi:10.1186/1471-2105-13-S5-S3