Table 1 Properties and diversities of MLST and AA-MLST loci
Locus | Fragment sizeA | Number and proportion of allelesB | Number and proportion of new alleles | Number and proportion of variable sitesB | D Simpsons Index of diversityB | d N /d S ratioB C | |||||
|---|---|---|---|---|---|---|---|---|---|---|---|
MLST | AA-MLST | MLST | AA-MLST | MLST | AA-MLST | MLST | AA-MLST | MLST | AA-MLST | MLST | |
dna E | 555 bp | 185 aa | 55; 14.8% (195; 13.7%) | 5; 12.8% (15; 10.6%) | 13; 23.6% | 2; 40.0% | 55; 9.9% (115; 20.7%) | 3; 1.6% (11; 5.9%) | 0.988 (0.985) | 0.630 (0.614) | 0.026 (0.025) |
gyr B | 591 bp | 197 aa | 65; 17.5% (274; 19.2%) | 1; 2.6% (7; 4.9%) | 28; 43.1% | 0; 0.0% | 47; 8.0% (100; 16.9%) | *; - (6; 3.0%) | 0.992 (0.989) | 0.000 (0.094) | 0.000 (0.002) |
rec A | 726 bp | 242 aa | 57; 15.3% (201; 14.1%) | 1; 2.6% (9; 6.3%) | 21; 36.8% | 0; 0.0% | 66; 9.1% (216; 29.8%) | *; - (24; 9.9%) | 0.987 (0.985) | 0.000 (0.106) | 0.006 (0.015) |
dtd S | 456 bp | 152 aa | 55; 14.8% (237; 16.6%) | 3; 7.7% (9; 6.3%) | 17; 36.4% | 1; 33.3% | 50; 11.0% (100; 21.9%) | 2; 1.3% (8; 5.3%) | 0.983 (0.987) | 0.127 (0.117) | 0.002 (0.002) |
pnt A | 429 bp | 143 aa | 41; 11.0% (146; 10.3%) | 7; 17.9% (36; 25.4%) | 11; 26.8% | 4; 57.1% | 41; 9.6% (85; 19.8%) | 6; 4.2% (29; 20.8%) | 0.965 (0.966) | 0.404 (0.525) | 0.018 (0.042) |
pyr C | 489 bp | 163 aa | 55; 14.8% (219; 15.4%) | 14; 35.9% (41; 28.9%) | 20; 38.2% | 3; 21.4% | 48; 9.8% (107; 21.8%) | 11; 6.8% (31; 19.0%) | 0.986 (0.981) | 0.791 (0.753) | 0.045 (0.049) |
tna A | 423 bp | 141 aa | 44; 11.8% (152; 10.7%) | 8; 20.5% (25; 17.6%) | 15; 34.1% | 4; 50.0% | 41; 9.7% (89; 21.0%) | 6; 4.3% (22; 15.6%) | 0.974 (0.97) | 0.355 (0.440) | 0.019 (0.023) |
total | 3669 bp | 1223 aa | 372; 100% (1424; 100%) | 39; 100% (142; 100%) | 125; 33.6% | 15; 29.9% | 348; 9.5% (812; 22.1%) | 28; 2.3% (131; 10.7%) | Â | Â | Â |