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Table 3 HMMER results for homology between TC families from the three organisms

From: Transferring functional annotations of membrane transporters on the basis of sequence similarity and sequence motifs

  Ec- At Ec- Sc Sc- At
1e-20 1e-16 1e-12 1e-8 1e-4 1e-20 1e-16 1e-12 1e-8 1e-4 1e-20 1e-16 1e-12 1e-8 1e-4
Precision [%] 73.3 85.6 86.7 90.0 90.8 78.6 78.6 81.6 86.7 92.9 84.7 85.4 85.4 97.5 93.7
Recall [%] 73.3 85.6 86.7 90.0 92.1 78.6 78.6 81.6 86.7 92.9 84.7 85.4 85.4 97.5 96.0
F-measure[%] 73.3 85.6 86.7 90.0 91.4 78.6 78.6 81.6 86.7 92.9 84.7 85.4 85.4 97.5 94.7
Unclassified [%] 76.7 52.2 40.0 33.3 17.8 21.4 21.4 18.4 13.3 7.1 15.3 14.6 14.6 2.5 2.5
  1. HMMER prediction results (sequence E-values) under the given E-value confidence thresholds. The results were normalized by the size of the reference database (see text). HMMER gave a better accuracy under loose thresholds compared to BLAST.