TABLE 1.
rDNA | Primer | Sequence (5′ → 3′) | Amplicon length (bp) | Reference no. | Non-3′ mismatcha | 3′ mismatcha | Non-3′ gapsa | 3′ gapsa | Weighted scorea |
---|---|---|---|---|---|---|---|---|---|
SSU | 18Sf | ATTCCAKCTCCAAKAGCG | 436 | 17 | 0.137 | 0.055 | 0.002 | 0.000 | 0.156 |
18Sr | GATNAGATACCRTCGTAGTC | 17 | 0.445 | 0.012 | 0.009 | 0.000 | 0.245 | ||
LSU | 26Sf | GCATATCAATAAGCGGAGGAAAAG | 579 | 29 | 2.977 | 0.339 | 0.018 | 0.000 | 1.720 |
26Sr | CCGTCTTGAAACACGGACCG | 29 | 1.556 | 0.158 | 0.012 | 0.001 | 0.904 | ||
ITS1-2 | ITS1f | TCCGTAGGTGAACCTGCGG | Variable | 23 | 3.503 | 1.024 | 0.059 | 0.002 | 3.050 |
ITS2r | GCATCGATGAAGAACGCAGC | 23 | 0.527 | 0.164 | 0.021 | 0.001 | 0.593 |
Weighted score = (non-3′ mismatches × 0.4) + 3′ mismatches + non-3′ gaps + (3′ gaps × 3.0) + final 3′ base mismatch × 3.0).