Table 2.
Summary of nucleotide polymorphism in Bruguiera gymnorrhiza
| Alignment length/Number of silent sites (bp) | n | S | Indel | πt | πs | πa | |
|---|---|---|---|---|---|---|---|
| Nuclear gene | |||||||
| NAC | 370/185.17 | 280 | 0 | 0 | 0.00 | 0.00 | 0.00 |
| VVHP | 575/381.06 | 280 | 26 (22/4) | 2 | 9.06 | 11.89 | 3.29 |
| PO | 536/237.67 | 280 | 0 | 0 | 0.00 | 0.00 | 0.00 |
| GM | 494/282.50 | 280 | 9 (7/2) | 0 | 6.57 | 11.51 | 0.07 |
| SF | 407/100.01 | 280 | 3 (1/2) | 0 | 2.17 | 8.90 | 0.00 |
| EXP2 | 535/433.89 | 278 | 18 (18/0) | 1 | 13.12 | 16.21 | 0.00 |
| UNK | 426/102.33 | 280 | 2 (0/2) | 0 | 1.03 | 0.00 | 1.35 |
| EPCRF | 408/82.75 | 280 | 7 (4/3) | 0 | 5.02 | 25.06 | 0.09 |
| PAL1 | 704/169.66 | 280 | 4 (2/2) | 2 | 1.30 | 3.27 | 0.68 |
| mang-1 | 840/773.67 | 280 | 15 (15/0) | 0 | 2.87 | 3.12 | 0.00 |
| Average | 530/274.87 | 279.8 | 8.4 (6.9/1.5) | 0.5 | 4.11 | 8.00 | 0.55 |
| cpDNA region | |||||||
| trnS-trnG | 581/506.00 | 140 | 3 | 5 | 0.08 | 0.08 | 0.00 |
Alignment length/Number of silent sites, Sequence length includes alignment gaps. Number of silent sites does not include alignment gaps. n, number of sequences; S, Number of segregating sites excluding indels. Numbers of silent/replacement differences are shown in parentheses; Indel, number of indels. Continuous alignment gap was counted as a single indel; πt, number of nucleotide differences per total site (Nucleotide diversity; Nei 1987) with the Jukes and Cantor (1969) correction. Indels are not included. The value was multiplied by 103; πs, number of nucleotide differences per silent site with the Jukes and Cantor (1969) correction. Indels are not included. The value was multiplied by 103; πa, number of nucleotide differences per nonsynonymous site with the Jukes and Cantor (1969) correction. Indels are not included. The value was multiplied by 103.