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Table 3 LAMP signature candidate regions for S. aureus, as generated by both LAVA and PrimerExplorer. Tm calculated with BioPerl using calculations from SantaLucia(8) with 50 mg/L salt concentration and 50 ng/L oligo concentration

From: LAVA: An Open-Source Approach To Designing LAMP (Loop-Mediated Isothermal Amplification) DNA Signatures

Program

Primer

Sequence

Tm (C)

5' Location

Length

LAVA

F1

GGAATAGTTTGTAAGACACCTGCCA

55.82

149

25

 

F2

ACCAACACCAAAAATCGGT

50.22

103

19

 

F3

GCTACAATTGCAGGCGTTT

51.66

83

19

 

B1

CAAAAACAAAGCGAACTGCCAAT

54.18

209

23

 

B2

TGGCATTATTACTTGCCATCA

50.38

260

21

 

B3

TTGATGTCGAAAACACTGGAA

50.63

300

21

PrimerExplorer

F1

TGTTGGAATAGTTTGTAAGACACCT

53.22

145

25

 

F2

TTACCAACACCAAAAATCGG

48.91

101

21

 

F3

GCTACAATTGCAGGCGTT

50.80

83

18

 

B1

CAAAAACAAAGCGAACTGCCAATA

53.99

209

24

 

B2

GCATTATTACTTGCCATCATTG

48.63

258

22

 

B3

TGTCGAAAACACTGGAACAT

50.11

296

20