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Table 1 Logical rules constructed by WARMR.

From: A discriminative method for family-based protein remote homology detection that combines inductive logic programming and propositional models

WARMR output
R1 : Homologous(A):- col(A,c,24), col(A,c,27), col(A,c,51) 1.0
R2 : Homologous(A):- col(A,c,45) 0.7
R3 : Homologous(A):- col(A,k,29) 0.45
R4 : Homologous(A):- hydrophobic(A,2) 0.7
R5 : Homologous(A):- aminoacidPairRatio(A,cg,1) 0.77
R6 : Homologous(A):- col(A,B,34), small(B) 1.0
Interpretation
R1 : 100% of homologous proteins have the C amino acid in positions 24, 27 and 51.
R2 : 70% of homologous proteins have the C amino acid in position 45.
R3 : 45% of homologous proteins have the K amino acid in position 29.
R4 : 70% of homologous proteins have between 10 and 20% of hydrophobic amino acids.
R5 : 77% of homologous proteins have at least 1 pair of CG.
R6 : 100% of homologous proteins have a small amino acid in positions 34.
  1. Some logical rules learned from "Glucocorticoid receptor-like (DNA-binding domain)" sequences and their alignment (see Figure 2). They are shown in their original WARMR output and their interpretation is given below.