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Phylogenetic analyses were performed after exclusion for known mutational hotspots (two poly-C runs at positions 303 315 and 16182 16194, an AC run at 515 525, and the mutational hotpot at 16519) resulting in the analysis of 16,531 bases for complete genomes and 15,447 bases for the coding region.
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An example of the base-matrix for the code with length and rate is shown in Figure 11.
In most cases the strand alignment of the open reading frames is supported by the apparent change in strand AG content, with a distinct preference for A and G bases in the coding strand.
Furthermore, of the 47 patients selected from the DNPR based on the coding for ICU admission, 27 had neither a code for mechanical ventilation nor acute dialysis.
A framework for coding (based on the coding system from the RJI) was developed by the researchers, then discussed and validated by an expert group of medical educators.
A student research assistant coded 174 papers and then the lead author and the research assistant created concept maps based on the coding for each of domains in the framework.
Transcribed regions were identified by the information given in ENSEMBL using the start and end bases for each coding gene.
As a way of summarizing differences between sequence clusters, raw pairwise nucleotide and amino acid differences and distances were calculated based on the coding region for each category of amplicon (Figure 6).
The basis of a new classification system is phylogenetic analysis of 11 RVA genome segments, although binary classification is still used; genotyping is based on the coding genes for VP7 (G) and VP4 (P) (2 ).
As input frames are hierarchically coded in the proposed method, we can predict which modes are suitable for the consecutive frames, based on the coding mode of the previous frame.
"It's a fantastic group of people, it just needs clear lines … We had bigger silos inside the company than outside the home page people didn't want to drive traffic to the finance people … We had 33 different code bases for the home page".
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