Table 2. Primer sequences for phage loci, VNTR loci and CRISPR 1 and 2 in Salmonella serovar Typhimurium.
| Primer | Sequence (5′-3′) | Product size bp | Target | Source |
| DT104 Gif1A-F | CACTCCAGACCTGCGCGACGATA | 414 | Gifsy-1DT104 | NC_022569 |
| DT104 Gif1A-R | CTGGTATGTGTGTCCCTCGCCG | |||
| DT104 Gif1B-F | CGGCACCAGAACGGATCACGGCT | 583 | Gifsy-1DT104 | NC_022569 |
| DT104 Gif1B-R | GTAAAGCCAGACGTCAGGGAAACCG | |||
| DT104 Gif1C-F | CCAGATCGTCAACTGTGTCATTCG | 636 | Gifsy-1DT104 | NC_022569 |
| DT104 Gif1C-R | TTGTATGGGACCTACGTTGCC | |||
| DT104 Gif1D-F | CACAGAGCAACTGAATGCAATG | 340 | Gifsy-1DT104 | NC_022569 |
| DT104 Gif1D-R | GAGACGGATCTGGAACATCA | |||
| DT104 Gif1E-F | CGGCGGAAGGCTGTAGAAACTA | 644 | Gifsy-1DT104 | NC_022569 |
| DT104 Gif1E-R | CGTCGTCGTATTGACTCTTGGC | |||
| SL1344 Gif1A-F | CACGCCACTCACCGTTAGGC | 413 | Gifsy-1SL1344 | NC_016810 |
| SL1344 Gif1A-R | TCGCCTGTGTAATGACTACTGG | |||
| SL1344 Gif1B-F | CCTCTTTGAACCCGGCTCGC | 441 | Gifsy-1SL1344 | NC_016810 |
| SL1344 Gif1B-R | GCAGGATGGCGCATTCCGTG | |||
| SL1344 Gif1C-F | CGATTAGCCGTGGTAGCAGGG | 495 | Gifsy-1SL1344 | NC_016810 |
| SL1344 Gif1C-R | CTGAAGACCTAACTGCTGCCG | |||
| SL1344 Gif1D.1-F | CTTCCAAGAGCAGCCCCTGTT | 419 | Gifsy-1SL1344 | NC_016810 |
| SL1344 Gif1D.1-R | CGATAGAGCTCAAGCAGGCGC | |||
| SL1344 Gif1D.2-F | CCGGTTACCAGCCTTCATCAAG | 500 | Gifsy-1SL1344 | NC_016810 |
| SL1344 Gif1D.2-R | CAAGATCGACATCACCTGGAAGG | |||
| SL1344 Gif1D.3-F | CCTTCCAGGTGATGTCGATCTTG | 560 | Gifsy-1SL1344 | NC_016810 |
| SL1344 Gif1D.3-R | CAAGCGTGTTGCCATCCTTCAC | |||
| SL1344 Gif1E-F | GCGCTTACCACCTGTGTGGAA | 446 | Gifsy-1SL1344 | NC_016810 |
| SL1344 Gif1E-R | CATAATCCTTACCGCGGCCGG | |||
| SL1344 Gif1F-F | CCGCGGCCTGCTGGTTAAG | 431 | Gifsy-1SL1344 | NC_016810 |
| SL1344 Gif1F-R | CGTACCAGTCCGGATCGCG | |||
| DT2 Gif1A-F | CCCAAGTTAGAGATGCAAAACGCC | 517 | Gifsy-1DT2 | NC_022544 |
| DT2 Gif1A-R | CGTCGATCGACCATAATTTGGGC | |||
| DT2 Gif1B-F | CACAACCCGGCCATGCTCAGG | 421 | Gifsy-1DT2 | NC_022544 |
| DT2 Gif1B-R | ATAAACCCCCTAAACCCCCCG | |||
| DT2 Gif1C.1-F | GCAGGAACCACTCCTTGATAACG | 566 | Gifsy-1DT2 | NC_022544 |
| DT2 Gif1C.1-R | ATCCAGTTCCTTGAGACGAAGCG | |||
| DT2 Gif1C.2-F | CGCCAAGAGGCAACTAAGTATCTG | 386 | Gifsy-1DT2 | NC_022544 |
| DT2 Gif1C.2-R | GTGAAAAATGCACATAATGACAAGCG | |||
| DT2 Gif1 24bp Rpt-F | CGGGGGGGTTAGGGGGTTTAT | 244 | Gifsy-1DT2 | NC_022544 |
| DT2 Gif1 24bp Rpt-R | CGGTCAGCGAATGGTCATCTTTAC | |||
| LT2 Gif1-F | GTGCTGTATCCAGTAGAAGCC | 760 | Gifsy-1LT2 | NC_003197 |
| LT2 Gif1-R | TCAGTCAGACACTACCATCGC | |||
| CVM23701 Gif1A-F | GGCAGGAAGGGCTAATTCACGAGA | 768 | Gifsy-1CVM23701 | ABAO01000067 |
| CVM23701 Gif1A-R | CAATAGAGGCCGTGGCACTTGC | |||
| CVM23701 Gif1B-F | GCAAGTGCCACGGCCTCTATTG | 534 | Gifsy-1CVM23701 | ABAO01000067 |
| CVM23701 Gif1B-R | GCGCATCACGACGAACGACG | |||
| CVM23701 Gif1C-F | CGTCGTTCGTCGTGATGCGC | 569 | Gifsy-1CVM23701 | ABAO01000067 |
| CVM23701 Gif1C-R | CAGAACTTCGGTAGCGGATTTGC | |||
| SPTR4-F | ACCTGGATAAATGGGCTTATTCCAAGC | 474 | Gifsy-1CVM23701 | ABAO01000067 |
| SPTR4-R | CATTCAGCCATTCGGGAACAGGAATAC | |||
| Gifsy-3-F | GAGCTCAGCAACGTGTCGAAAGC | 734 | Gifsy-314028 | NC_016856 |
| Gifsy-3-R | TTGGTCTGCGGGGACATCGCC | |||
| DT104 SB52-F | GCGGCGATGAAGGAATTCGG | 605 | ST64BDT104 | NC_022569 |
| DT104 SB52-R | ACCAGACAAGACCACCAGCG | |||
| DT104 SB53-F | CAGGAGGCGAATCAACATGCAA | 538 | ST64BDT104 | NC_022569 |
| DT104 SB53-R | CTCCAGCACTCACCCAAGATG | |||
| DT104 SB26.1-F | CGGCGAAATTCTGTCTGGGTTATC | 264 | ST64BDT104 | NC_022569 |
| DT104 SB26.1-R1 | CCTAAAGTGGTTCCCCTCTCAACT | |||
| DT104 SB26.2-F | AAAGTTCAGACAATCAGCGTGG | 388 | ST64BDT104 | NC_022569 |
| DT104 SB26.1-R2 | CCACGCTGATTGTCTGAACTTT | 583 | ||
| DT104 SB26.3-F1 | CCAGTATTTTCAGCGCAGTAG | 553 | ST64BDT104 | NC_022569 |
| DT104 SB26.2-R | CTACTGCGCTGAAAATACTGG | |||
| DT104 SB26.3-F | CTCCAGGATGAGCTGCAGTAAC | 444 | ST64BDT104 | NC_022569 |
| DT104 SB26.3-R | CCAGGATCCTGACTCTTCTGTG | |||
| DT104 SB33-F | GTCAGGCACTCATTAAAGGTTGCG | 424 | ST64BDT104 | NC_022569 |
| DT104 SB33-R | GGTTATCGATGCTTATCAGTCTGC | |||
| DT104 SB3738-F | GGCTCGGTGGTATCCTTATAAG | 359 | ST64BDT104 | NC_022569 |
| DT104 SB3738-R | CTTTCAGAGATGGCTATTTCTTC | |||
| DT104 SB49-F | GTCGAAAGCACCGCTTGGGTTTG | 426 | ST64BDT104 | NC_022569 |
| DT104 SB49-R | TAAACAGGCGTGCCATGAAGTCGG | |||
| DT104 SB5051-F | GCATCGCGCCGACTGGCATATTT | 381 | ST64BDT104 | NC_022569 |
| DT104 SB5051-R | CCAACGGAACAGCACTGTATGTAAC | |||
| STTR1-F | CAGCAGTACAACCGTCAGCAGGAT | 770 | 45 bp TR | NC_003197 |
| STTR1-R | GCCCCACCGTTAGCGCCCGATGTA | |||
| STTR7-F | CGCGCAGCCGTTCTCACT | 594 | 39/45/30 bp TR | NC_003197 |
| STTR7-R | TGTTCCAGCGCAAAGGTATCTA | |||
| STTR8-F | AATTAATTGCCGGATGGTGA | 841 | 108/116 bp TR | NC_003197 |
| STTR8-R | AGCGATTGCTGGCCTAGAT | |||
| STTR11-F | ATCCAAGGGGTCGTTAGCTC | 716 | 155 bp TR | NC_003197 |
| STTR11-R | ACGTAGCCCCGTATCTGATG | |||
| STTR12-F | GGATGGTGGTGTTATTGGCCGGT | 762 | 184 bp TR | NC_003197 |
| STTR12-R | CTGAAGGAGCACGCCTGGAAAGTG | |||
| CDC ST3-F | GTTCTTCTGCAACGCAGGCA | 193 | 12 bp TR | NC_003197 |
| CDC ST3-R | GATGGCATGACGCTGCAACG | |||
| CRSP1-F | CGAAGGCGGAAAAAACGTCCTG | 1735 | CRISPR1 | NC_003197 |
| CRSP1-R | GACGTATTCCGGTAGATCTGGATG | |||
| CRSP1 74 bpSp-F | CGCGGGGAACACAATTAAAGCCGA | 1273 | CRISPR1 after 74 bp spacer | NC_003197 |
| CRSP1 74 bpSp-R | TCGGCTTTAATTGTGTTCCCCGCG | 486 | CRISPR1 before 74 bp spacer | |
| CRSP2-F | GTASCWGCCATTACTGGTACACAG | 2197 | CRISPR2 | NC_003197 |
| CRSP2-R | CATAGCGATGCACGGATCACGC | |||
| CRSP2-Sp13-F | ATTTCGCCTTCGGCACTGACGTCAC | 1396 | CRISPR2 after spacer 13 | NC_003197 |
| CRSP2-Sp13-R | GTGACGTCAGTGCCGAAGGCGAAAT | 827 | CRISPR2 before spacer 13 | NC_003197 |
| CRSP2-Sp24-F | CTAGGAGGCGTAATGAATACTACG | 400 | CRISPR2 after spacer 24 | ABAO01000021 |
| CRSP2-Sp24-R | CGTAGTATTCATTACGCCTCCTAG | 1434 | CRISPR2 before spacer 24 | ABAO01000021 |