Table 3 Primer details for Multiplex 3.
| Â | PCR amplification | Single-base extension | |||||||
|---|---|---|---|---|---|---|---|---|---|
Site | Primer sequences (5'-3') | Concentration (μM) | Amplicon size (bp) | Primer sequence (5'-3') (5' aspecific tail in lowercase italics) | Concentration (μM) | Length (nt) | Orientation | Alleles (dye) | |
290-291 | F | CGCTTTCCACACAGACATCA | 0.350 | 94/92 | (gact) 6 gac CCACACAGACATCATAACAAAA | 0.350 | 49 | F | a (green), d (red)* |
| Â | R | GGGTTTGGCAGAGATGTGTT | 0.350 | Â | Â | Â | Â | Â | Â |
2092 | F | TTGCCCACAGAACCCTCTAA | 0.300 | 141 | act(gact) 3 ga CTCTAAATCCCCTTGTAAATTTAA | 0.400 | 41 | F | C (yellow), T (red) |
| Â | R | AATTGGTGGCTGCTTTTAGG | 0.300 | Â | Â | Â | Â | Â | Â |
3330 | F | CAGTCAGAGGTTCAATTCCTCTT | 0.100 | 142 | act(gact) 7 CGATTAGAATGGGTACAATGAG | 0.150 | 53 | R | C (blue), T (green) |
| Â | R | GGGCCTTTGCGTAGTTGTAT | 0.100 | Â | Â | Â | Â | Â | Â |
3826 | F | TGAAGTCACCCTAGCCATCA | 0.200 | 168 | ct(gact) 3 GGTCATGATGGCAGGAGTA | 0.200 | 33 | R | C (blue), T (green) |
| Â | R | AAGGGGGTTCGGTTGGT | 0.200 | Â | Â | Â | Â | Â | Â |
6285 | F | GAGCAGGAACAGGTTGAACA | 0.300 | 237 | actgactga CCTGCTAAGGGAGGGTAGA | 0.450 | 28 | R | A (red), G (yellow) |
| Â | R | GGAGAGATAGGAGAAGTAGGACTGC | 0.300 | Â | Â | Â | Â | Â | Â |
6374 | Â | same amplicon as 6285 | Â | Â | ctgact TTGATGGCCCCTAAGAT | 0.300 | 23 | R | C (blue), T (green) |
11177 | F | TTCACAGCCACAGAACTAATCA | 0.200 | 164 | ct(gact) 10 gac GCGTTCAGGCGTTCTG | 0.600 | 61 | R | C (blue), T (green) |
| Â | R | AGTGCGATGAGTAGGGGAAG | 0.200 | Â | Â | Â | Â | Â | Â |
11365 | F | CACCCTAGGCTCACTAAACATTC | 0.100 | 160 | t(gact) 9 g CTTAATATGACTAGCTTACACAATAGC | 0.100 | 65 | F | C (yellow), T (red) |
| Â | R | TTCGACATGGGCTTTAGGG | 0.100 | Â | Â | Â | Â | Â | Â |
11959 | F | CCCCCACTATTAACCTACTGG | 0.200 | 190 | act(gact) 10 gac CTCCTACTTACAGGACTCAACAT | 0.150 | 69 | F | A (green), G (blue) |
| Â | R | TCTCGTGTGAATGAGGGTTTT | 0.200 | Â | Â | Â | Â | Â | Â |
12007 | Â | same amplicon as 11959 | Â | Â | ct(gact) 9 gac GGTGGGTGAGTGAGCC | 0.300 | 57 | R | A (red), G (yellow) |
14433 | F | CTCCATCGCTAACCCCACTA | 0.400 | 170 | (gact) 6 GCTATTGAGGAGTATCCTGAG | 0.300 | 45 | R | C (blue), T (green) |
| Â | R | TTCTGAATTTTGGGGGAGGT | 0.400 | Â | Â | Â | Â | Â | Â |
14502 | Â | same amplicon as 14433 | Â | Â | act(gact) 3 ga CATCATTCCCCCTAAATAAA | 0.450 | 37 | F | C (yellow), T (red) |