Table 4.
Haplotype and nucleotide diversity in the complete PmMSP1 sequences.
| Block | No. codons | M | S | H | h ± S.D | π ± S.E | dS ± S.E | dN ± S.E |
|---|---|---|---|---|---|---|---|---|
| I (conserved) | 56 | 2 | 2 | 3 | 0.160 ± 0.080 | 0.00098 ± 0.00071 | 0.01980 ± 0.02021 | 0.00501 ± 0.00503 |
| II (indels) | 5–15 | – | – | 6 | 0.157 ± 0.077 | – | 0.00000 ± 0.00000 | 0.03810 ± 0.03041 |
| III (conserved) | 140 | 2 | 2 | 3 | 0.398 ± 0.081 | 0.00103 ± 0.00090 | 0.00000 ± 0.00000 | 0.00392 ± 0.00271 |
| IV (variable) | 32 | 30 | 27 | 10 | 0.838 ± 0.036 | 0.07763 ± 0.01894 | 0.01882 ± 0.01386 | 0.12613 ± 0.02543** |
| V (conserved) | 440 | 10 | 10 | 9 | 0.740 ± 0.048 | 0.00144 ± 0.00061 | 0.00158 ± 0.00149 | 0.00397 ± 0.00130 |
| VI (repeats) | 97–229 | – | – | 20 | 0.863 ± 0.040 | 0.12162 ± 0.01382 | – | – |
| VII (conserved) | 156 | 10 | 10 | 4 | 0.340 ± 0.093 | 0.00232 ± 0.00088 | 0.01346 ± 0.00949 | 0.01282 ± 0.00454 |
| VIII (repeats) | 28–60 | – | – | 10 | 0.567 ± 0.071 | 0.02852 ± 0.00954 | – | – |
| IX (conserved) | 719 | 13 | 12 | 13 | 0.890 ± 0.027 | 0.00113 ± 0.00043 | 0.00115 ± 0.00110 | 0.00161 ± 0.00051 |
| All | 1696–1831 | 72 | 68 | 21 | 0.944 ± 0.021 | 0.01204 ± 0.00162 | 0.00208 ± 0.00077 | 0.00447 ± 0.00065* |
M the number of mutations, S the number of segregating sites, H the number of haplotypes, h haplotype diversity, π nucleotide diversity, dS number of synonymous substitutions per synonymous site, dN number of nonsynonymous substitutions per nonsynonymous site, S.D. standard deviation, S.E. standard error. Analysis includes 35 Thai isolates and the FJ824669 sequence. Z-tests of the hypothesis that mean dS equals that of mean dN: * p < 0.05; **p < 0.0005.