Figure 4

E-value significance scores for HMMER-taxonomy vs HMMER for PF05353 (Atracotoxin), plotted on a log-log scale. The red dots represent sequences in the same SCOP superfamily (which are treated as homologous). The blue dots represent sequences in different SCOP folds (which are treated as non-homologous). The green dots represent sequences in the same SCOP fold but different superfamily (which are treated as neither homologous or non-homologous). Note that the most significant match (with e-value of 3.9e - 33 unchanged by the taxonomic adjustment) is not shown. The three red dots in the bottom half of the graph are homologous sequences which are more significant (e-values 4–6) under HMMER-taxonomy than under HMMER alone (e-values 40–80). In general points below the diagonal line y = x are more significant under the HMMER-taxonomy model than under HMMER alone, whereas those above are less significant.