TABLE 4.
Comparable assembly statistics and gene predictions in resequenced isolates of Phytophthora fragariae and Phytophthora rubi.
| Phytophthora fragariae | Phytophthora rubi | |||||||||||||
| A4 | BC-1 | BC-16 | BC-23 | NOV-5 | NOV-9 | NOV-27 | NOV-71 | NOV-77 | ONT-3 | SCRP245 | SCRP249 | SCRP324 | SCRP333 | |
| Assembly Size (Mb) | 79.08 | 79.10 | 90.97 | 78.26 | 78.99 | 79.43 | 79.75 | 78.37 | 78.80 | 79.06 | 77.84 | 77.79 | 77.91 | 77.82 |
| Contig Number (≧ 500 bp) | 13,446 | 11,556 | 180 | 13,191 | 13,531 | 11,801 | 12,489 | 12,212 | 13,321 | 13,265 | 13,231 | 14,023 | 13,946 | 13,679 |
| N50 (kb) | 18.2 | 21.8 | 923.5 | 18.2 | 17.9 | 21.5 | 19.4 | 20.2 | 18.9 | 18.8 | 18.2 | 16.6 | 16.9 | 16.9 |
| L50 | 1,116 | 953 | 33 | 1,119 | 1,134 | 978 | 1,046 | 1,016 | 1,101 | 1,104 | 1,120 | 1,232 | 1,218 | 1,210 |
| Repeatmasked | 31% | 31% | 38% | 31% | 31% | 31% | 31% | 31% | 31% | 31% | 31% | 31% | 31% | 30% |
| Genesa | 30,180 (33,623) | 30,375 (33,691) | 37,049 (41,103) | 29,960 (33,143) | 30,248 (33,699) | 29,986 (33,527) | 30,600 (33,797) | 29,708 (33,143) | 30,099 (33,580) | 30,180 (33,415) | 30,202 (33,223) | 31,458 (34,139) | 30,235 (33,263) | 32,623 (35,223) |
| Single-Copy BUSCO genes | 274 (90%) | 274 (90%) | 266 (88%) | 275 (91%) | 273 (90%) | 273 (90%) | 273 (90%) | 274 (90%) | 272 (90%) | 277 (91%) | 273 (90%) | 273 (90%) | 274 (90%) | 275 (91%) |
| Duplicated BUSCO genes | 6 (2%) | 6 (2%) | 9 (3%) | 5 (2%) | 7 (2%) | 6 (2%) | 6 (2%) | 6 (2%) | 8 (2.5%) | 7 (2%) | 7 (2.5%) | 8 (3%) | 8 (3%) | 7 (2%) |
| Fragmented BUSCO genes | 6 (2%) | 6 (2%) | 5 (1.5%) | 7 (2%) | 6 (2%) | 7 (2%) | 7 (2%) | 6 (2%) | 6 (2%) | 4 (1%) | 7 (2.5%) | 3 (1%) | 3 (1%) | 3 (1%) |
| Missing BUSCO genes | 17 (6%) | 17 (6%) | 23 (7.5%) | 16 (5%) | 17 (6%) | 17 (6%) | 17 (6%) | 17 (6%) | 17 (5.5%) | 15 (5%) | 16 (5%) | 19 (6%) | 18 (6%) | 18 (6%) |
aValues in brackets include low confidence gene models from open reading frames.