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As one can see, sequences from different classes would incur worse matching (Figure 3(b)) while the matching between sequences from the same category are more consistent and regular (Figure 3(a)).
Distances between sequences from the same genus are not included.
Nucleotide diversity was low, indicating little variation between sequences from the same population.
Overall, the average percentage identity for pairwise comparisons between sequences from the nine species was 75.5 ± 4.5 (SD) % for TLR1 and 75.2 ± 4.1% for TLR6.
DOI: http://dx.doi.org/10.7554/eLife.11282.017 Figure 5B shows the corresponding plot for diversity, i.e., the distances between sequences from the same sample.
Indeed, we do not find a preferential association between sequences from the same wasp species, and the internal branches of this clade are not well supported.
Similar(45)
It is estimated that Salmonella and E. coli diverged about 100 million years ago [ 9] and thus a statistically significant similarity between sequences from these bacteria indicates that the corresponding genes evolve under purifying selection.
Phylogenetic trees disclosed a robustly supported relationship between sequences from Brazil, the UK and East Africa.
However, we found only one true recombinant in our dataset and no evidence of past recombination events in the comparison between sequences from two different species (within the hybrid).
For example, within Gentianopsis thermalis, the distance between sequences from Colorado and Wyoming plants with different conformations of the inversion (0.01887) is more than twice the distance between the Wyoming G. thermalis and a specimen of Gentianopsis holopetala (0.00937)(Table 1).
Among the other haplotypes, the largest number of pair-wise nucleotide differences was 13 (p = 0.014) and the largest differences were between sequences from Haukipudas (population 3) and the island of Hailuoto (populations 7, 10).
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