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Table 2 Genetic diversity and neutrality test statistics by lineage (L1-L4)

From: Genomic epidemiology of Lineage 4 Mycobacterium tuberculosis subpopulations in New York City and New Jersey, 1999–2009

Lineage N S π D T D FL F FL R 2 H FW Hn FW
L1 7 2238 1.7E-4 −1.157 −0.9802
(−1.7817*)
−1.0910
(−1.9267*)
0.0812** 457.62 1.180
L2 9 2240 1.3E-4 −1.627 −1.66780
(−2.3468**)
−1.8172
(−2.5742**)
0.0795** 162.92 0.430
L1/L2/L3 19 6249 2.7E-4 −1.622 −2.1420*
(−2.9363**)
−2.2253*
(−2.9868**)
0.0631** 635.80 0.671
L4 47 4892 1.1E-4 −2.205* −4.3046**
(−5.3287**)
−4.1559**
(−4.8682**)
0.0334** 304.47 0.490
L4: NYC 21 2262 8.9E-5 −1.649 −2.5102*
(−3.3684 *)
−2.6277*
(−3.4054 *)
0.0593** 230.01 0.7874
L4: S75 9 149 1.5E-5 −0.498 0.07218
(0.45497)
−0.07462
(0.22079)
0.1297 −29.14 −1.125
  1. N, number of ingroup sequences; S, number of segregating sites; π, nucleotide diversity; k, average number of nucleotide differences; D T , Tajima’s D; R 2 , Ramos-Onsins and Rozas’ R 2 , D FL and F FL , Fu and Li’s D and F (calculated with M. bovis as an outgroup); H FW , Fay and Wu’s H; Hn FW , Fay and Wu’s normalized H. Statistical significance was assess with 10,000 coalescent simulations (50,000 simulations for R 2 ). *P < 0.05, **P < 0.005