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The phylogenetic reconstruction was done using the neighbor-joining (NJ) algorithm and maximum likelihood tree with bootstrap value calculated from 1000 replicates run.
We chose to analyze the DU145 sample as it was the most thoroughly sequenced sample with two replicates run using each technology.
Technical replicates run on the BCP and HCP had average correlations of 0.9612 and 0.9613, respectively (Pearson's r correlation, see Supplementary Figures 1A and B).
The same program using the same settings was used for the bootstrap (BS) analysis with 1000 BS replicates run in batches of 100 replicates and pooled.
Data reflect an average of 6 condition replicates, run in parallel during two independent runs of 6 replicates each, done on different days.
The average intraassay percentage CV, which was calculated across all replicates run during sample analysis, was 3.01% (urine samples) and 3.97% (standards) for the lactulose assay and 1.89% (samples) and 2.36% (standards) for the mannitol assay.
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Ten independent search replicates were run, with each replicate run for 100,000 generations.
Ten independent search replicates were run under the GTR + I + G model, with each replicate run for 100,000 generations.
Bootstrap values (1000 replicate runs, %) >70%% are listed.
Replicate runs to 1100 °C in argon for all coatings allowed the experimental variability and reliability of differences between coatings to be described.
Three replicate runs using F. tularensis strain LVS showed identical results.
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