Table 3 Summary of results for Evac3a branch analysis, site and branchsite analysis for mammalian clades
From: Evolutionary analysis of genes coding for Cysteine-RIch Secretory Proteins (CRISPs) in mammals
Evac3a | LRTs for Branch Analysis | LRTs for BS analysis | Prop. of sites in ω classes (BS): | Interpretation | |||||||
Foreground branches | 2Δ(M0-MC) | 2Δ(MCfixed-MC) | 2Δ(BSfixed-BS) | ω | 0 | 1 | 2a | 2b | PSS (BEB p < 0.05) | Selection over whole sequence | Selection on sites |
Cricetulus griseus | −1.83 | −0.38 | −0.09 | 0.53 | 0.44 | 0.53 | 0.01 | 0.01 | – | relaxed | no |
Marmota marmota | −7.18(0.04) | −7.18 | −8.07(0.03) | 0.00 | 0.45 | 0.52 | 0.02 | 0.02 | 35 E, 161 Y | relaxed | positive |
Mesocricetus auratus | −0.44 | −4.51 | 0.00 | 0.53 | 0.46 | 0.54 | 0.00 | 0.00 | – | conserved | no |
Microtus ochrogaster | −7.05(0.04) | 0.00 | −7.29(0.03) | 1.00 | 0.43 | 0.45 | 0.06 | 0.06 | 49 S, 225 K | relaxed | positive |
Mus musculus | −0.12 | −2.02 | −1.67 | 0.53 | 0.45 | 0.54 | 0.00 | 0.01 | – | relaxed | no |
Nannospalax galili | −0.07 | −3.69 | −7.30(0.03) | 0.53 | 0.43 | 0.53 | 0.02 | 0.02 | (8 L) | relaxed | positive |
Peromyscus maniculatus | 0.00 | −2.41 | −5.03 | 0.53 | 0.45 | 0.54 | 0.01 | 0.01 | 187 S | relaxed | no |
Rattus norvegicus | −0.05 | −2.07 | 0.00 | 0.53 | 0.45 | 0.53 | 0.01 | 0.01 | – | relaxed | no |
LRTs for Site Analysis | prop of sites in ω classes (M2a): | ||||||||||
Over all branches | 2Δ(M7-M8) | 2Δ(M1a-M2a) | 0 | 1 | 2 | PSS (BEB p < 0.05, both LRTs) | Selection on sites | ||||
Rodentia | −7.54(0.01) | −5.45 | 0.50 | 0.25 | 0.25 | 64 G, 73 T | positive (trend) | ||||