Table 1.
Correlation of distances measured in concatenated introns and exons of human and mouse orthologous genes
| Ki – Ks correlation | Ki – Ka correlation | ||||
| Exon distance measurement* | Intron alignment/selection method† | Correlation coefficient (r) | Significance probability (p) | Correlation coefficient (r) | Significance probability (p) |
| ML (CF = 2) | Gap 1, Gblocks 1 | 0.34 | 0.0057 | 0.33 | 0.0081 |
| ML (CF = 2) | Gap 1, Gblocks 2 | 0.32 | 0.0111 | 0.33 | 0.0079 |
| ML (CF = 2) | Gap 2, Gblocks 1 | 0.35 | 0.0045 | 0.32 | 0.0108 |
| ML (CF = 2) | Gap 2, Gblocks 2 | 0.33 | 0.0075 | 0.33 | 0.0089 |
| ML (CF = 2) | Gap 3, Gblocks 1 | 0.32 | 0.0105 | 0.31 | 0.0124 |
| ML (CF = 2) | Gap 3, Gblocks 2 | 0.30 | 0.0153 | 0.30 | 0.0165 |
| ML (CF = 3) | Gap 1, Gblocks 1 | 0.35 | 0.0044 | 0.34 | 0.0061 |
| ML (CF = 3) | Gap 1, Gblocks 2 | 0.32 | 0.0108 | 0.34 | 0.0061 |
| ML (CF = 3) | Gap 2, Gblocks 1 | 0.35 | 0.0047 | 0.32 | 0.0095 |
| ML (CF = 3) | Gap 2, Gblocks 2 | 0.32 | 0.0098 | 0.33 | 0.0077 |
| ML (CF = 3) | Gap 3, Gblocks 1 | 0.31 | 0.0121 | 0.32 | 0.0112 |
| ML (CF = 3) | Gap 3, Gblocks 2 | 0.29 | 0.0207 | 0.31 | 0.0147 |
| NG | Gap 1, Gblocks 1 | 0.34 | 0.0068 | 0.33 | 0.0082 |
| NG | Gap 1, Gblocks 2 | 0.32 | 0.0109 | 0.33 | 0.0079 |
| NG | Gap 2, Gblocks 1 | 0.35 | 0.0053 | 0.32 | 0.0099 |
| NG | Gap 2, Gblocks 2 | 0.35 | 0.0052 | 0.33 | 0.0082 |
| NG | Gap 3, Gblocks 1 | 0.26 | 0.0371 | 0.32 | 0.0110 |
| NG | Gap 3, Gblocks 2 | 0.29 | 0.0236 | 0.30 | 0.0154 |
*Ks and Ka were measured by maximum likelihood (ML) with codon frequencies taken from the data (CF = 2) or used as free parameters (CF = 3), or by the Nei-Gojobori method (NG). †Introns were aligned using the Gap program with the parameters GOP = 50 and GEP = 3 (Gap 1); GOP = 35 and GEP = 2 (Gap 2); or GOP = 20 and GEP = 2 (Gap 3), and the conserved segments extracted with the Gblocks program with 'maximum number of contiguous nonconserved positions' = 8 (Gblocks 1) or 4 (Gblocks 2).