Table 2.
Recovery efficiency of HybPiper for 22 Artocarpus and six other Moraceae, using two methods for assigning reads to lociBLASTX (mapping to protein sequences) and BWA (mapping to nucleotide sequences).
| BLASTX method | BWA method | ||||||
| Taxon | N | Phylogenetic loci | MADS box | Volatiles | Phylogenetic loci | MADS box | Volatiles |
| Total genes in array | 333 | 98 | 27 | 333 | 98 | 27 | |
| Artocarpus subg. Artocarpus | 12 | 329.6 | 96.4 | 26.4 | 331 | 94 | 26.5 |
| Artocarpus subg. Cauliflori | 2 | 328.5 | 96.5 | 26.5 | 330.5 | 93 | 26.5 |
| Artocarpus subg. Pseudojaca | 6 | 326.7 | 95.3 | 26.2 | 329.8 | 89.3 | 26.2 |
| Artocarpus (other) | 2 | 326 | 95 | 26 | 327 | 87.5 | 25.5 |
| Antiaropsis | 1 | 257 | 41 | 13 | 259 | 8 | 10 |
| Maclura | 1 | 307 | 53 | 21 | 299 | 10 | 19 |
| Streblus | 1 | 318 | 30 | 17 | 315 | 3 | 17 |
| Ficus | 1 | 315 | 56 | 25 | 311 | 17 | 20 |
| Dorstenia | 1 | 135 | 15 | 2 | 118 | 0 | 1 |
| Parartocarpus | 1 | 127 | 21 | 4 | 120 | 0 | 3 |
Note: N = number of individuals sampled.