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Table 2 benchmark test results

From: MACSIMS : multiple alignment of complete sequences information management system

Feature type percent identity query features homolog features true positive false positive new features
PFAM-A domain <90% 161 161 160 0 4
  <50% 161 150 149 0 3
PROSITE pattern <90% 166 165 160 0 5
  <50% 166 153 148 0 4
Uniprot site <90% 360 305 260 0 64
  <50% 360 288 235 0 56
secondary structure <90% 1486 1265 1150 1 987
  <50% 1486 1197 1009 1 802
Total <90% 2283 1896 1730 1 1060
  <50% 2283 1788 1541 1 865
  1. Percent identity indicates the maximum similarity of the sequences in the alignment with the query. 'Query features' is the number of sequence features for the query available in the public databases. 'Homolog features' is the number of features found in the other sequences in the alignment that correspond to a feature in the query. True (or false) positives indicate the number of features propagated by MACSIMS that match (or mismatch) with known query features. 'New features' is the number of features predicted by MACSIMS that are not currently found in the public databases.