Primer Panels | Coordinate of IS element (w.r.t. H37Rv) present in strain | Primers flanking the co-ordinate of IS element | Standardized annealing temp./ MgCl2concentration | Amplicon size (bp) | |
---|---|---|---|---|---|
 |  |  |  | With IS | W/o IS |
A | 3480373, + strand, in AC74 | 5’-CAGCAGGGATGGATTCACC-3’5’-GCGAGTGGGATTCAGAGAG-3’ | 62°C/1mM | 1836 | 481 |
B | 1527976, + strand, in AC544 | 5’-GTGGTGCCGTCGTTGTCTC-3’5’-ATGCCCGTAATGTCTGCTGG-3’ | 60.2°C/1.5mM | 1632 | 277 |
C | 1356494, + strand, in AC741356495, + strand, in F85 | 5’-TTCGTCTCAATGGGCAACTAC-3’5’-CACCAGGCACTTCGTTATCG-3’ | 60.2°C/2.5mM | 1552 | 197 |
D | 2550014-2551368, + strand, in H37Rv | 5’-CTGCGACTGCGTTGGTAATC-3’5’-ACGGTGGGGAAAGCCTGAAG-3’ | 61.3°C/1mM | 1563 | 205 |
E | 1541952-1543306, - strand, in H37Rv | 5’-AGCAGGAGGAGCGGGACG-3’5’-GGATAACAGGCGCGAACCG-3’ | 72°C/1mM | 1622 | 264 |
F | 1657017, + strand, in F85 | 5’-TCCCTACACTCGGTTCATCC-3’5’-ACAGCAGCAGCGCCACGG-3’ | 61.3°C/1mM | 1552 | 197 |
G | 2229658, - strand, in F99 | 5’-TGGTGGTCAGGGAAAAGCC-3’5’-CCCTCCCGTAGCAGCCGC-3’ | 61.3°C/1.5mM | 1617 | 262 |
H (IS6110ref) | Multiple copies present in all | 5’-CGTGAGGGCATCGAGGTGGC-3’5’-GCGTAGGCGTCGGTGACAAA-3’ | 65°C/1mM | 245 | 0 |