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| S P | indicates only one cluster C ( t - δ : t ), ν = C T, N including all sequences of configurations.
The test set, including all sequences and additional information sources, will also be made available on a supplementary web site.
To evaluate if the data set is subjected to 'long branch attraction' we compared the strict consensus tree topology between two phylogenetic analysis; the first including all sequences from all outgroups and the second analysis including only the sequences from the ingroup as described by Bergsten [42].
* Including all sequences (contigs + scaffolds).
A similar tree topology was obtained using an alignment including all sequences (not shown).
Then the search was iterated twice including all sequences recovered in the initial search.
Similar(42)
A preliminary analysis including all sequenced clones and PCR products was conducted.
Maximum likelihood and Bayesian analyses were performed with both datasets and with single loci as well as multi-gene alignments including all sequence fragments.
Assemblies were performed for each isolate individually and also as a combined assembly including all sequence data for a deeper coverage of the common features of the cluster SMI-049 isolates.
VMM performed the bioinformatics analyses including all sequence alignments and statistical evaluations.
A phylogenetic tree including all sequenced Geobacillus spp. and twelve Geobacillus spp. type strains was constructed using the recN gene.
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