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Table 1 Nucleotide polymorphism in An. funestus genes

From: Identification and analysis of Single Nucleotide Polymorphisms (SNPs) in the mosquito Anopheles funestus, malaria vector

  Coding region Non-coding region
Polymorphic sites Nucleotide diversity Polymorphic sites Nucleotide diversity
  Transition Transversion  
Gene nHap L (bp) 1st 2nd 3rd Σ 1st 2nd 3rd Σ Syn Rep Σ π πn Ks Ka L(bp) Ts Tv Σ π
4G17 3 190 0 1 1 2 0 0 0 0 1 1 2 0.0052 0.0036 0.0200 0.0072 0 0 0 0 0.0000
9K1 23 199 3 1 3 7 1 0 1 2 5 4 9 0.0193 0.0107 0.1010 0.0270 0 0 0 0 0.0000
4J10 14 141 1 0 3 4 0 0 1 1 5 0 5 0.0116 0.0000 0.1300 0.0000 73 2 2 4 0.0157
6P3 18 0 0 0 0 0 0 0 0 0 0 0 0 0.0000 0.0000 0.0000 0.0000 179 6 2 8 0.0188
6P4 17 201 0 0 2 2 0 0 0 0 2 0 2 0.0041 0.0000 0.0450 0.0000 189 8 3 11 0.0233
6P5 5 189 0 0 1 1 0 0 0 0 1 0 1 0.0016 0.0000 0.0200 0.0000 112 2 0 2 0.0063
6Z1 14 444 1 0 5 6 0 0 5 5 8 3 11 0.0079 0.0022 0.0750 0.0088 29 1 0 1 0.0159
6Z3 14 453 1 0 13 14 1 0 5 6 18 2 20 0.0169 0.0011 0.1860 0.0057 0 0 0 0 0.0000
9J12 9 156 2 1 0 3 1 0 1 2 0 5 5 0.0117 0.0156 0.0000 0.0510 0 0 0 0 0.0000
9J14 14 174 0 0 3 3 2 0 0 2 3 2 5 0.0140 0.0077 0.0760 0.0150 0 0 0 0 0.0000
BU01 2 162 0 0 1 1 0 0 0 0 1 0 1 0.0011 0.0000 0.0230 0.0000 26 0 0 0 0.0000
BU08 12 394 0 0 2 2 2 1 2 5 4 3 7 0.0042 0.0026 0.0470 0.0098 16 0 0 0 0.0000
Ache 18 249 0 1 7 8 0 1 2 3 8 3 11 0.0149 0.0034 0.1460 0.0160 85 2 2 4 0.0180
BU10 16 294 1 0 3 4 0 0 2 2 5 1 6 0.0084 0.0024 0.0690 0.0045 245 3 1 4 0.0056
BU11 4 177 0 1 0 1 0 0 0 0 0 1 1 0.0029 0.0039 0.0000 0.0074 53 0 1 1 0.0099
BU12 7 504 1 1 1 3 0 1 1 2 3 2 5 0.0032 0.0011 0.0240 0.0053 38 0 0 0 0.0000
BU13 19 363 2 0 1 3 0 0 0 0 1 2 3 0.0026 0.0029 0.0110 0.0073 148 2 5 7 0.0133
BU19 22 526 3 1 4 8 0 1 1 2 6 4 10 0.0072 0.0035 0.0490 0.0100 0 0 0 0 0.0000
BU021 17 267 0 0 2 2 0 0 2 2 4 0 4 0.0044 0.0000 0.0610 0.0000 67 2 2 4 0.0164
BU21 16 417 0 1 2 3 1 0 2 3 4 2 6 0.0073 0.0018 0.0510 0.0077 81 4 1 5 0.0256
BU25 2 234 0 0 0 0 0 0 0 0 0 0 0 0.0000 0.0000 0.0000 0.0000 111 2 0 2 0.0036
BU29 11 258 0 0 2 2 0 0 2 2 3 1 4 0.0038 0.0008 0.0540 0.0049 152 0 2 2 0.0029
BU34 11 231 0 0 2 2 0 2 2 4 4 2 6 0.0101 0.0051 0.0740 0.0113 28 0 0 0 0.0000
BU35 12 264 0 0 7 7 0 0 1 1 8 0 8 0.0071 0.0000 0.1280 0.0000 108 1 1 1 0.0039
BU40 14 255 2 1 1 4 1 0 0 1 1 4 5 0.0074 0.0076 0.0170 0.0200 415 3 2 5 0.0016
BU56 4 156 0 1 2 3 1 0 2 3 3 3 6 0.0214 0.0132 0.0710 0.0263 126 5 2 7 0.0331
BU58 7 261 1 0 2 3 0 1 1 2 3 2 5 0.0053 0.0019 0.0446 0.0103 20 0 0 0 0.0000
BU62 22 213 0 0 1 1 0 0 0 0 1 0 1 0.0013 0.0000 0.0207 0.0000 260 7 5 12 0.0143
BU66 25 282 9 2 0 11 1 2 0 3 3 11 14 0.0174 0.0194 0.0503 0.0494 179 4 4 8 0.0099
BU70 5 228 0 0 2 2 0 0 2 2 2 2 4 0.0066 0.0015 0.0506 0.0059 62 0 1 1 0.0069
BU71 9 573 0 0 6 6 1 1 2 4 8 2 10 0.0044 0.0005 0.0615 0.0045 98 1 0 1 0.0051
BU72 20 354 2 1 2 5 2 1 1 4 3 6 9 0.0082 0.0062 0.0368 0.0220 195 1 1 2 0.0052
BU73 5 277 0 0 0 0 1 2 0 3 0 3 3 0.0039 0.0036 0.0000 0.0135 0 0 0 0 0.0000
BU76 15 330 0 0 7 7 1 1 1 3 9 1 10 0.0087 0.0008 0.1104 0.0041 154 3 3 6 0.0095
BU77 18 261 3 0 1 4 1 2 0 3 6 1 7 0.0125 0.0136 0.0166 0.0298 198 9 7 16 0.0345
BU82 13 228 0 0 2 2 0 2 0 2 2 2 4 0.0059 0.0025 0.0402 0.0112 88 2 2 4 0.0156
BU85 14 299 2 1 8 11 0 0 1 1 11 1 12 0.0108 0.0363 0.1155 0.0033 121 2 0 2 0.0087
BU88 16 441 2 0 12 14 0 0 2 2 16 0 16 0.0135 0.0000 0.1601 0.0000 212 9 4 13 0.0179
BU90 4 0 0 0 0 0 0 0 0 0 0 0 0 0.0000 0.0000 0.0000 0.0000 261 1 2 3 0.0021
BU92 11 345 3 1 3 7 1 1 1 3 5 5 10 0.0075 0.0031 0.0650 0.0186 110 5 3 8 0.0226
BU93 8 510 0 0 5 5 0 0 3 3 7 1 8 0.0035 0.0004 0.0626 0.0025 137 0 2 2 0.0023
BU98 4 369 0 0 5 5 0 0 2 2 7 0 7 0.0101 0.0000 0.0843 0.0000 158 2 6 8 0.0257
BU883 21 354 1 0 5 6 2 1 2 5 7 4 11 0.0120 0.0052 0.0913 0.0145 188 8 3 11 0.0189
BU897 19 303 0 0 2 2 3 1 2 6 3 5 8 0.0080 0.0078 0.0458 0.0210 167 4 3 7 0.0180
BU901 12 231 0 0 3 3 0 0 0 0 3 0 3 0.0035 0.0000 0.0552 0.0000 229 2 2 4 0.0065
BU973 5 471 1 1 0 2 0 0 0 0 2 0 2 0.0015 0.0019 0.0000 0.0054 67 1 0 1 0.0028
BU974 3 459 0 0 2 2 0 0 1 1 3 0 3 0.0036 0.0000 0.0265 0.0000 52 1 0 1 0.0096
BU982 4 240 0 1 1 2 0 0 0 0 1 1 2 0.0030 0.0016 0.0190 0.0053 51 1 0 1 0.0107
BU996 18 543 4 0 2 6 1 1 1 3 6 3 9 0.0073 0.0019 0.0518 0.0070 87 6 6 12 0.0312
Kdr 13 201 0 0 0 0 1 1 0 2 0 2 2 0.0020 0.0026 0.0000 0.0127 501 2 5 7 0.0039
Total   14671 45 17 139 201 25 23 54 102 206 97 303      5876 106 85 191  
Average               0.0072 0.0041 0.0537 0.0097      0.0123
  1. nHap, number of haplotypes; L, length of the nucleotide sequence; ∑, total; Syn, synonymous substitutions; Rep, replacement substitutions; π, average number of nucleotide substitution per site; πn, average number of non-synonymous nucleotide substitution per site; Ks, average number of nucleotide substitution per synonymous site; Ka, per non-synonymous site; Ts, transitions; Tv, transversions.