Table 2 Summary of timing, memory, and numbers of predicted hits for Coronaviridae and HIV1 signatures
From: Simulate_PCR for amplicon prediction and annotation from multiplex, degenerate primers and probes
Target set | No. of target seqs. | No. of primers | No. of probes | Time against input fasta database* (h:mm:ss or m:ss) | Time against nt | RAM used (MB) against input fasta | RAM used (GB) against nt | Number of targets amplified | Number of targets with probe on amplicon | Number of sequences amplified from nt | Number of sequences amplified from nt outside the target group |
|---|---|---|---|---|---|---|---|---|---|---|---|
Coronaviridae | 547 | 64 | 45 | 1:29 | 3:36:39 | 340 | 10.9 | 547 | 541 | 1091 | 2 vectors |
1 Glaucous-winged gull+ | |||||||||||
HIV1 | 1809 | 14 | 96 | 4:25 | 4:10:44 | 881 | 14.5 | 1809 | 1809 | 12371 | 8 synthetic contructs |
10 vectors | |||||||||||
3 SIV |