Table 2

Number of probes selected by PanArray to tile various bacterial pan-genomes.

Species

Strains

Avg. Length (Mbp)

Pan Length (Mbp)

Targets

Probes

Reuse

F. tularensis

14

1.88

26.29

1,355,504

121,312

11.2 (0.80)

S. aureus

14

2.88

40.38

2,006,144

200,999

10.0 (0.71)

B. anthracis

9

5.48

49.29

2,230,870

246,947

9.0 (0.99)

L. monocytogenes

20

2.74

54.81

2,832,489

358,688

7.9 (0.39)

V. cholerae

15

3.87

58.09

3,017,198

346,447

8.7 (0.58)

B. pseudomallei

20

6.72

134.31

6,755,234

491,231

13.8 (0.69)

E. coli/Shigella

29

4.96

143.72

8,210,679

674,697

12.2 (0.42)

Avg. length is the average genome length for a species. Pan length is the sum of all genome lengths for a species. Targets is the total number of locations targeted by the probes. A single probe may target multiple genomes in the species. Reuse is the average number of targets per probe, and a normalized reuse is given in parentheses as the reuse divided by the number of genomes.

Phillippy et al. BMC Bioinformatics 2009 10:293   doi:10.1186/1471-2105-10-293