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Table 3 Sites under PDS in the A. thaliana/P. trichocarpa ARF gene family: „Site-specific analysis".

From: The evolution of nuclear auxin signalling

Site-specific analyses n dN/dS (ω) under M0 2Δℓ M2 vs. M1 (df 2) 2Δℓ M8 vs. M7 (df 2) Parameter estimates under M8 Positively selected sites under M2 (BEB) Positively selected sites under M8 (BEB)
ARF        
Node ARF2 5 0.183 0.00 0.56 ρ0 = 0.957 (ρ1 = 0.043) (ρ = 0.431) q = 1.635 ω = 1.09 None 478 540 563 631 758
Node ARF6 7 0.122 0.00 1.04 ρ0 = 0.997 (ρ1 = 0.003) (ρ = 0.355) q = 1.994 ω = 4.49 None 372 464 476 479 482 485 539
Node ARF7 6 0.154 0.00 13.78** ρ0 = 0.973 (ρ1 = 0.027) (ρ = 0.409) q = 1.814 ω = 3.086 None 460 526 532 534 539 542 544 546 550 556 557 558 559 561 562 566 568 569 570 574 599 608 677 785
Node ARF10 8 0.137 0.00 0.64 ρ0 = 0.998 (ρ1 = 0.016) (ρ = 0.413) q = 1.988 ω = 2.69 None 96 449 486 570
Node ARF11 5 0.151 0.00 1.74 ρ0 = 0.932 (ρ1 = 0.068) (ρ = 0.528) q = 2.885 ω = 1.00 None 6 334 370 372 376 383 399 412 413 478 529
Node ARF12 6 0.566 19.42** 19.4** ρ0 = 0.982 (ρ1 = 0.018) (ρ = 0.056) q = 0.054 ω = 10.50 175 335 389 433 444 447 527 567 569 570 572 175 335 351 359 389 433 444 447 527 567 569 570 572
  1. Each comparison has n sequences, dN/dS is average ratio over sites under a codon model with one ω. Bold underline, PP ≥ 0.99 of being under positive selection; bold, 0.99>PP ≥ 0.95; italic, 0.95>PP ≥ 0.90; underline, 0.90>PP ≥ 0.70; normal, 0.70>PP > 0.50