TABLE 2.
Comparative analysis of in silico PCR application for isolating and characterizing plant Copia-type reverse transcriptase fragments and NCBI BLAST.
| Tool | Total number of matches | Number of false positive matches |
|---|---|---|
| Arabidopsis thaliana | ||
| NCBI BLAST | 38 | 0 |
| In silico PCR tool | 62 | 0 |
| Brachypodium distachyon | ||
| NCBI BLAST | 312 | 0 |
| In silico PCR tool | 509 | 0 |
| Zea mays | ||
| NCBI BLAST | 37 651 | 0 |
| In silico PCR tool | 39 710 | 0 |
| Capsicum annuum | ||
| NCBI BLAST | 6 246 | 0 |
| In silico PCR tool | 3 747 | 0 |
| Hordeum vulgare | ||
| NCBI BLAST | 43 939 | 0 |
| In silico PCR tool | 41 781 | 0 |
| Triticum dicoccoides | ||
| In silico PCR tool | 75 358 | 0 |
| Vitis vinifera | ||
| In silico PCR tool | 913 | 0 |
| Puccinia triticina (fungi) | ||
| In silico PCR tool | 41 | 0 |
| Nomada hirtipes (insect) | ||
| In silico PCR tool | 13 | 2 |
| Hydra vulgaris | ||
| In silico PCR tool | 7 | 7 |
| Rattus norvegicus (mammals) | ||
| In silico PCR tool | 24 | 24 |
| Homo sapiens (mammals) | ||
| In silico PCR tool | 11 | 11 |