Table 4 Comparison of characteristics from the different analyses, best values for each characteristic shown in bold.
From: Chloroplast DNA rearrangements in Campanulaceae: phylogenetic utility of highly rearranged genomes
| Â | Matrix 1 | Matrix 2, no weights | Matrix 2 weighted | Matrix 3, no weights | Matrix 3 weighted | rbcL | ITS* |
|---|---|---|---|---|---|---|---|
Number of MP trees | 6 | 241 | 12 | 2 | 2 | 9 | 1 |
Number of resolved nodes in consensus of MP trees | 10 | 6 | 10 | 9 | 9 | 14 | 13 |
Nodes retained in consensus of all trees to 1% longer | 6 | 5 | 5 | 6 | 7 | 5 | 2 |
CI (with / without autapomorphies) | 0.81/0.67 | 0.90/0.79 | 0.93/0.82 | 0.97/0.93 | 0.97/0.94 | 0.77/0.66 | 0.69/0.60 |
Number of nodes BS ≥ 50 | 8 | 7 | 7 | 9 | 9 | 13 | 10 |
Number of nodes BS ≥ 90 | 3 | 5 | 4 | 6 | 5 | 5 | 6 |
Average bootstrap value of resolved nodes | 72 | 91 | 72 | 85 | 86 | 78 | 74 |
Number characters (PI) | 37 | 31 | Â | 34 | Â | 116 | 195 |
Total homoplastic characters (number/percent of PI) | 15/40.5% | 8/25.8% | Â | 3/8.8% | Â | 63/54.3% | 141/71.9% |
Homoplastic characters with one excess change | 12/32.4% | 7/22.6% | Â | 3/8.8% | Â | 48/41.4% | 82/41.8% |
Homoplastic characters with two excess changes | 3/8.1% | 1/3.2% | Â | 0 | Â | 14/12.1% | 41/20.9% |
Homoplastic characters with three or more excess changes | 0 | 0 | Â | 0 | Â | 1/0.1% | 18/9.2% |