Table 4.
Feature descriptions.
| Features represented within mutated templates | ||
|---|---|---|
| Feature description | Feature abbreviation | Notes |
| Percent of substitutions in the first primer | % MM P1 | If a template only has mismatches in a single primer, that primer is labeled as first primer. If both primers contain mismatches, then primers will be randomly labeled as first primer and the other second primer |
| Percent of substitutions in the second primer | % MM P2 | |
| Percent of substitutions in the probe | % MM Probe | |
| Percent of deletion in the first primer | # Del P1 | |
| Percent of deletion in the second primer | # Del P2 | |
| Percent of deletion in the probe | # Del Probe | |
| Nucleotide distance from the 3′ end of the first primer to the nearest substitution/deletion | Nearest 3′ P1 | |
| Nucleotide distance from the 3′ end of the second primer to the nearest substitution/deletion | Nearest 3′ P2 | |
| Number of deletion and substitution within 5 nucleotide distance to the 3′ of the first primer | # MM/Del 3′ P1 | |
| Number of deletion and substitution within 5 nucleotide distance to the 3′ of the second primer | # MM/Del 3′ P2 | |
| Difference in annealing temperature of the first primer and protocol annealing temperature (55 °C) | Temp Diff P1 | Annealing temperatures were calculated using the Tm_GC function of the biopython package35 |
| Difference in annealing temperature of the second primer and protocol annealing temperature (55 °C) | Temp Diff P2 | |
| Difference in annealing temperature of probe and protocol annealing temperature (55 °C) | Temp Diff Probe | |