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Table 1 Summary of the analysis of quality and bias present in the data

From: Positive selection neighboring functionally essential sites and disease-implicated regions of mammalian reproductive proteins

GENE DATA QUALITY PHYLOGENETIC ANALYSIS
  LM Category AA Comp Bias Base Comp Bias Substitution
Model
Gene v Species Tree LBA
Artifact
Adam2 1 Pass Pass JTT+G Unresolved No
Catsper1 Exon1 1 Pass Pass JTT+I+G+F Unresolved No
Catsper1 Mammals 1 Pass Pass JTT+G+F Unresolved No
Col1a1 1 Pass Pass JTT+G Unresolved No
Ph20 1 Pass Pass JTT+G+F Resolved Yes
Porimin 1 Pass Pass JTT+G+F Unresolved No
Prkar2a 2 Pass Pass JTT+I+G Unresolved No
Semg2 1 Pass Pass JTT+G+F Unresolved No
Sp56 2 Pass Pass JTT+I+G Unresolved No
Zp2 1 Pass Pass JTT+G Unresolved No
Zp3 1 Pass Pass JTT+G+F Unresolved No
  1. Genes with significant signal are given in the Likelihood mapping, or, L.M. Category column, see text for explanation of the category 1 and 2 in this column. Results of the amino acid composition and nucleotide base composition bias tests, are shown in the A.A. Comp Bias and Base Comp Bias columns respectively. The phylogenetic trees for each gene are drawn using the substitution model described where G = gamma distributed rates across sites, I = invariable sites, F = frequency of amino acids, JTT = Jones Taylor Thornton model. In the case of LBA analysis, No = no evidence of LBA in the gene analysed, Yes = evidence of LBA in the gene analysed.
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