Table 2 Alignment accuracies for differing gap open costs. Alignment accuracies for various gap open costs using a gap extension cost of 0.57.
Data Set | Gap Open Cost | Parsimony | Ambiguous Parsimony | ML | Ambiguous ML | Ma et al. | ClustalW |
|---|---|---|---|---|---|---|---|
Early Growth | 5 | 89.27% | 88.41% | 88.43% | 88.09% | 92.77% | 90.48% |
| Â | 7 | 88.43% | 83.83% | 87.86% | 86.26% | 91.74% | 91.25% |
| Â | 9 | 86.17% | 76.04% | 86.13% | 82.58% | 90.42% | 91.48% |
| Â | Change | 3.10% | 12.37% | 2.3% | 5.51% | 2.35% | 1.00% |
Early Growth Double Length | 5 | 63.43% | 63.32% | 63.01% | 63.05% | 78.19% | 69.63% |
| Â | 7 | 64.68% | 57.24% | 63.54% | 59.89% | 74.29% | 72.35% |
| Â | 9 | 61.40% | 46.72% | 60.02% | 52.33% | 68.44% | 73.59% |
| Â | Change | 2.03% | 16.6% | 2.99% | 10.72% | 9.75% | 3.96% |
Late Growth | 5 | 95.95% | 96.35% | 92.06% | 91.70% | 96.97% | 96.50% |
| Â | 7 | 95.76% | 96.01% | 89.44% | 87.52% | 96.63% | 96.79% |
| Â | 9 | 95.21% | 95.39% | 84.95% | 80.71% | 96.12% | 96.91% |
| Â | Change | 0.74% | 0.96% | 7.11% | 10.99% | 0.85% | 0.41% |
Late Growth Double Length | 5 | 86.21% | 88.91% | 73.21% | 68.18% | 91.43% | 88.17% |
| Â | 7 | 86.71% | 88.12% | 64.76% | 55.67% | 89.68% | 89.54% |
| Â | 9 | 85.58% | 86.16% | 54.36% | 43.02% | 87.08% | 90.15% |
| Â | Change | 0.63% | 2.75% | 18.85% | 25.16% | 4.35% | 1.98% |