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Table 1 Correlation coefficients of the translation dependent scores used on non-frameshifted amino acids, with BLOSUM scores and classic DNA scores

From: Back-translation for discovering distant protein homologies in the presence of frameshift mutations

  DNA BLOSUM 62
TDS M (0.1) 0.86 0.52
TDS M (0.3) 0.81 0.50
TDS M (0.5) 0.77 0.50
TDS M (0.7) 0.75 0.50
TDS M (1.0) 0.71 0.47
TDS E 0.59 0.88
  1. The correlation coefficients between several types of scores that can be used to align amino acids without a frameshift: i) expected amino acid pair scores obtained from codon alignment with a classic match/mismatch scoring scheme (denoted DNA); ii) expected amino acid pair scores obtained from the translation-dependent scoring matrices based on the mechanistic codon substitution model (denoted TDS M ); iii) expected amino acid pair scores obtained from the translation-dependent scoring matrices based on the empirical codon substitution model (denoted TDS E ); iv) BLOSUM matrices for amino acid sequence alignment.