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| Case I | BRCA1 | ||
|---|---|---|---|
| Human-Mouse | Mouse-Rat | Rat-Human | |
| DQNalign | 3399 | 4811 | 3551 |
| Mummer | 2273 | 4821 | 2771 |
| Clustal | 2456 | 4718 | 2482 |
| Case II | ELK1 | ||
| Human-Mouse | Mouse-Rat | Rat-Human | |
| DQNalign | 1095 | 1237 | 1075 |
| Mummer | 1018 | 1237 | 1002 |
| Clustal | 1051 | 1230 | 1041 |
| Case III | CCDC91 | ||
| Human-Mouse | Mouse-Rat | Rat-Human | |
| DQNalign | 1034 | 1249 | 1021 |
| Mummer | 826 | 1249 | 811 |
| Clustal | 979 | 1244 | 970 |
