Table 2.
Target | Primer name | Sequence (5' to 3') | Paired primer set and predicted amplicon size |
Conserved for each IS element | IS1111-1 | ACTGCGTTGGGATACCCATC | NAa |
IS1 | IS1 | TAATGGGCGACCAAGTCGA | IS1111-1; 501 bp |
IS2 | IS2 | GGCTGAATGAATGCCTTCCA | IS1111-1; 501 bp |
IS3 | IS3 | AAAAAGACCCTTCAGGTAATGGAA | IS1111-1; 477 bp |
IS4 | IS4 | TTCCGCCATGACCAACTTC | IS1111-1; 519 bp |
IS5 | IS5 | GTCGGTCAACGTCGTCACAT | IS1111-1; 515 bp |
556F | AACCGTGGCTGAGCGATC | IS5; NA | |
IS6 | IS6 | CCATTTGCAATAGCCGTGAA | IS1111-1; 477 bp |
IS7 | IS7 | GCGGTTTTGGTACAATACTGTCATT | IS1111-1; 571 bp |
1091F | TGCAGGACATATTGTTGATGTCAC | IS7; NA | |
IS8 | IS8 | GGCAAGGATGACGAATGGAT | IS1111-1; 471 bp |
IS9 | IS9 | GCCTCAGCCGATTTCGAG | IS1111-1; 492 bp |
1219F | CCCGAAGGTATCCATAACTCTGG | IS9; NA | |
IS10 | IS10 | GTGCGGCATTCGTGGTAGA | IS1111-1; 481 bp |
1269R | GATTTCCATCGACGTCCGC | 1273R; NA | |
1273R | TTCAGTTTATAGCGGCAGGACC | IS1111-1; NA | |
IS11 | IS11 | AAAGCCGTTCCCTACCGTG | IS1111-1; 481 bp |
IS12 | IS12 | ACGTAGTTTGGAAAGGATACCCG | IS1111-1; 482 bp |
IS13 | IS13 | GATGAGCGTCCACCACTGAA | IS1111-1; 537 bp |
IS14 | IS14 | TGCTACCAACAGACTTACGGCA | IS1111-1; 481 bp |
1701R | TAAACACGAGGCGCTAGGTCA | IS14; NA | |
IS15 | IS15 | AACGCCCATGTGAGAAACATC | IS1111-1; 531 bp |
1718F | ACGGGTGTTCAAGCAGCC | IS15; NA | |
IS16 | IS16 | ATGACTTCTGATAGGGACTGTGCTC | IS1111-1; 511 bp |
1761F | GCCGTTGATCTTGCCGATAA | IS16; NA | |
IS17 | IS17 | CGAATCGCATTGGCACAGT | IS1111-1; 477 bp |
IS18 | IS18 | CGTTTGCTGCTATACGACATGAA | IS1111-1; 532 bp |
IS19 | IS19 | GTCGCCCAGGAGTGTTTCTG | IS1111-1; 531 bp |
1960R | ACAAAGACGACTCAGTTCGGC | 1963R; NA | |
1963R | CGATGTCTGCCTTTAGGAGGTC | 1960R; NA | |
1963R-seq | GTAGAAAGAGTCTCTCTTG | NA | |
IS20 | IS20 | ACGTCAATTACATCGAGCATTCA | IS1111-1; 470 bp |
1987F | AGGGCCATCTTGACCTGGA | 1993F; NA | |
1993F | CGCACTGAGCGCATTGAC | 1987F; NA |
a Not applicable