Table 5

Calculation of the MRCA of Ugandan type II and III isolates and reference strains based on the intron mutation rate

Chromosome

Intron length* (bp)

Minor SNPs in introns

MRCA Me49/UgII (years)

MRCA VEG/UgIII (years)


Type II

II

89,003

34

19,691

IV

85,471

58

34,979

VI

152,385

65

21,987

VIIa

198,902

28

7,256

IX

266,876

117

22,598

X

334,181

79

12,186

Total II

1,126,818

381

17,429

Type III

Ia

80,522

2

1,280

Ib

85,805

8

4,806

III

82,660

9

5,612

V

119,536

15

6,468

VIIb

220,517

39

9,116

VIII

337,557

78

11,911

XII

352,605

78

11,403

Total III

1,279,202

229

9,228


The divergence between Ugandan and reference strains were calculated based on the intron mutation rate 1.94 × 10-8 [26]. A more comprehensive version is provided in Additional data file 4. *Length of intronic regions. MRCA, most recent common ancestor.

Bontell et al. Genome Biology 2009 10:R53   doi:10.1186/gb-2009-10-5-r53

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