Selected article for: "acid identity and amino acid"
Author: Stenglein, Mark D.; Sanders, Chris; Kistler, Amy L.; Ruby, J. Graham; Franco, Jessica Y.; Reavill, Drury R.; Dunker, Freeland; DeRisi, Joseph L.
Title: Identification, Characterization, and In Vitro Culture of Highly Divergent Arenaviruses from Boa Constrictors and Annulated Tree Boas: Candidate Etiological Agents for Snake Inclusion Body Disease
  • Document date: 2012_8_14
    • ID: vkhg20he_37
    Snippet: Phylogenetic analysis. The BLASTP alignment tool was used to query the NCBI nr database for sequences similar to predicted viral protein sequences, and sequences producing alignments with an expect value of less than 10 Ϫ6 were downloaded. The CD-HIT software version 4.0 (64) was used to collapse sequences with greater than 90% pairwise amino acid identity. Multiple-sequence alignments were created using Clustal (version 2.1) using default param.....
    Document: Phylogenetic analysis. The BLASTP alignment tool was used to query the NCBI nr database for sequences similar to predicted viral protein sequences, and sequences producing alignments with an expect value of less than 10 Ϫ6 were downloaded. The CD-HIT software version 4.0 (64) was used to collapse sequences with greater than 90% pairwise amino acid identity. Multiple-sequence alignments were created using Clustal (version 2.1) using default parameters (65) . Maximum likelihood phylogenies were created using PhyML (PhyML plugin for Geneious version 2.0.12) using the LG model of amino acid substitutions, 100 bootstrap replicates, and otherwise default parameters (66) .

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