Author: Palmer, Duncan S.; Turner, Isaac; Fidler, Sarah; Frater, John; Goedhals, Dominique; Goulder, Philip; Huang, Kuan-Hsiang Gary; Oxenius, Annette; Phillips, Rodney; Shapiro, Roger; Vuuren, Cloete van; McLean, Angela R.; McVean, Gil
Title: Mapping the drivers of within-host pathogen evolution using massive data sets Document date: 2019_7_9
ID: 100r7w2n_107
Snippet: In both the query and reference data sets after filtering we obtain a relatively constant sequence ambiguity across the newly defined regions of protease and reverse transcriptase, with slight increases at the start and end of the region as we would expect. Consensus nucleotide proportion across both newly defined regions averaged across all sites is 0.941 and 0.943 for protease and reverse transcriptase respectively, with any large drop below th.....
Document: In both the query and reference data sets after filtering we obtain a relatively constant sequence ambiguity across the newly defined regions of protease and reverse transcriptase, with slight increases at the start and end of the region as we would expect. Consensus nucleotide proportion across both newly defined regions averaged across all sites is 0.941 and 0.943 for protease and reverse transcriptase respectively, with any large drop below this coinciding with a subtype B/C consensus sequence difference at the nucleotide level.
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