TABLE 1.
Primers used in this studya
| Primer | Sense | Enzyme or probe | Sequence |
|---|---|---|---|
| 2252 | − | AflII | GCCTATTGGCCTTAAGTGTTTAGGTCCCCG |
| 2253 | + | KpnI | TGGGGTACCGCCCTTGCGAG |
| 2254 | − | SpeI | CCCACTAGTGGCGCGCCTG |
| 2513 | + | BclI (5999) | GGACAGGCGCCCTGATCACGCCATG |
| 2514 | − | Bsu36I (6551) | GAAGAGCCCATCACGGCCTGAGG |
| 2515 | + | 5B SL1 (6314) | TCCAGCAAAGCGGTTAACCACATCCGCTCGGTTTGGAAGGACCTCCTCGAAGACACTGAGACACC |
| 2516 | − | 5B SL1 | GAGGAGGTCCTTCCAAACCGAGCGGATGTGGTTAACCGCTTTGCTGGATAGGTTCCGG |
| 2517 | + | 5B SL3.2 B | GTTGCTGGTTACTCGGGCGGTGACATATATCACAGCCTCAGCAGGGCCAGGCCGAGGTGGTTCATGTGG |
| 2518 | − | 5B SL3.2 B | CCACATGAACCACCTCGGCCTGGCCCTGCTGAGGCTGTGATATATGTCACCGCCCGAGTAACCAGCAAC |
| 2519 | + | 5B SL3.2 A | GGTTACTCGGGCGGTGACATCTACCATTCTCTCAGCAGGGCCAGGCCGAGGTGG |
| 2520 | − | 5B SL3.2 A | CCACCTCGGCCTGGCCCTGCTGAGAGAATGGTAGATGTCACCGCCCGAGTAACC |
| 2521 | + | 5B SL3.3 | CCCCGCTGGTTCATGTGGTGTCTCCTGCTCTTGTCTGTCGGTGTTGGGATCTATCTACTCCCC |
| 2522 | − | 5B SL3.3 | GGGGAGTAGATAGATCCCAACACCGACAGACAAGAGCAGGAGACACCACATGAACCAGCGGGG |
| 2621 | + | 5B SL3.2 D | AGCGGGGGAGACATCTACCATTCTCTGTCTCGTGCC |
| 2622 | − | 5B SL3.2 D | GGCACGAGACAGAGAATGGTAGATGTCTCCCCCGCT |
| 2623 | + | 5B SL3.2 E | CACAGCCTGTCTCGGGCCAGGCCCCGCTGGTTC |
| 2624 | − | 5B SL3.2 E | GAACCAGCGGGGCCTGGCCCGAGACAGGCTGTG |
| 2625 | + | 5B SL3.2 C | AGCGGGGGAGACATCTACCATTCTCTGTCTCGGGCCAGGCCCCGCTGGTTC |
| 2626 | − | 5B SL3.2 C | GAACCAGCGGGGCCTGGCCCGAGACAGAGAATGGTAGAGGTCTCCCCCGCT |
| 2752 | + | 6505 | CTTTACGATGTGGTCTCCACC |
| 2753 | − | 7394 (NcoI) | GCGCTAAGGCCATGGAGTCG |
| 2754 | + | SL2 | GACGAGGCGAGCCTTCGCGCCTTCACCGAAGCAATGACTCGCTACTCTGCCCCC |
| 2755 | − | SL2 | GGGGGCAGAGTAGCGAGTCATTGCTTCGGTGAAGGCGCGAAGGCTCGCCTCGTC |
| 2756 | + | SL3.1 | GCTGCGTCCCAGTTGGATTCCAGCTCGTGGTTCGTTGCTG |
| 2757 | − | SL3.1 | CAGCAACGAACCACGAGCTGGAATCCAACTGGGACGCAGC |
| 2937 | + | A68C | CGGGGGAGACATCTATCACAGCCTG |
| 2938 | − | A68C | CAGGCTGTGATAGATGTCTCCCCCG |
| 2939 | + | U71C | GGGAGACATATACCACAGCCTGTCTC |
| 2940 | − | U71C | GAGACAGGCTGTGGTATATGTCTCCC |
| 2941 | + | C74U | GAGACATATATCATAGCCTGTCTCGTG |
| 2942 | − | C74U | CACGAGACAGGCTATGATATATGTCTC |
| 2943 | + | A75U/G76C/C77U | GACATATATCACTCTCTGTCTCGTGCC |
| 2944 | − | A75U/G76C/C77U | GGCACGACACAGAGAGTGATATATGTC |
| 2945 | + | C77U | CATATATCACAGTCTGTCTCGTGCC |
| 2946 | − | C77U | GGCACGAGACAGACTGTGATATATG |
| 2947 | + | C76A/U86G | CACAGCCTGTCTAGGGCCCGACCCCGC |
| 2948 | − | C76A/U86G | GCGGGGTCGGGCCCTAGACAGGCTGTG |
| 2949 | + | C76A/U86A | CACAGCCTGTCTAGAGCCCGACCCCGC |
| 2950 | − | C76A/U86A | GCGGGGTCGGGCTCTAGACAGGCTGTG |
| 2951 | + | U86G | CAGCCTGTCTCGGGCCCGACCCCGC |
| 2952 | − | U86G | GCGGGGTCGGGCCCGAGACAGGCTG |
| 2953 | + | C90A/A92G | CTGTCTCGTGCCAGGCCCCGCTGGTTC |
| 2954 | − | C90A/A92G | GAACCAGCGGGGCCTGGCACGAGACAG |
| 2955 | + | A92G | GTCTCGTGCCCGGCCCCGCTGGTTC |
| 2956 | − | A92G | GAACCAGCGGGGCCGGGCACGAGAC |
| 3057 | − | Primer 1 | GAAAAAAACAGGATGGCCTATTG |
| 3059 | − | Primer 3 | CTATTGGCCTGGAGTGTTTAG |
| 3060 | − | Primer 4 | GAGTGTTTAGGTCCCCGTTC |
| 3131 | + | Pmel-BsiW1 | CTTCTGAGTTTAAACACGTACGACCACAACGGTTTCCCTCTAG |
| 3132 | − | HindIII | GTTGTTTGTCTTCAAGAAGCTTCC |
| 3133 | + | PmeI 5B SL3 | AGCTTTGTTTAAACTCACTCCAATCCCGGC |
| 3134 | − | BsiWI 5B SL3 | CCGTTGTGGTCGTACGAGTGTTTAGGTCCCCGTTCATC |
| 3298 | + | A92C | GTCTCGTGCCCGCCCCCGCTGGTTC |
| 3299 | − | A92G | GAACCAGCGGGGGCGGGCACGAGAC |
| 3300 | + | A92U | GTCTCGTGCCCGTCCCCGCTGGTTC |
| 3301 | − | A92U | GAACCAGCGGGGACGGGCACGAGAC |
| 3302 | + | C90A/A92A | GTCTCGTGCCAGACCCCGCTGGTTC |
| 3303 | − | C90A/A92A | GAACCAGCGGGGTCTGGCACGAGAC |
a
Mutations are indicated in boldface. Generated restriction enzyme sites are underlined.