Selected article for: "fit model and sequence alignment"
Author: Jiao-Mei Huang; Syed Sajid Jan; Xiaobin Wei; Yi Wan; Songying Ouyang
Title: Evidence of the Recombinant Origin and Ongoing Mutations in Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2)
  • Document date: 2020_3_17
    • ID: fw4pmaoc_20
    Snippet: The sequences of CoVs were aligned using multiple sequence alignment MAFFT (v7.450) (Katoh et al., 2019) . Aligned sequences were visualized with Jalview (v2.10.3) (Waterhouse et al., 2009) . Poorly aligned regions and gaps were removed by trimAL (v1.4.rev22) (Capellagutiérrez et al., 2009) . Maximum likelihood (ML) phylogenetic trees of whole genome sequences were constructed in IQ-TREE (v1.6.12) (Nguyen et al., 2015) . Support for inferred rel.....
    Document: The sequences of CoVs were aligned using multiple sequence alignment MAFFT (v7.450) (Katoh et al., 2019) . Aligned sequences were visualized with Jalview (v2.10.3) (Waterhouse et al., 2009) . Poorly aligned regions and gaps were removed by trimAL (v1.4.rev22) (Capellagutiérrez et al., 2009) . Maximum likelihood (ML) phylogenetic trees of whole genome sequences were constructed in IQ-TREE (v1.6.12) (Nguyen et al., 2015) . Support for inferred relationships in the phylogenetic tree was assessed by bootstrap analysis with 1000 replicates and the best-fit substitution model was determined by IQ-TREE model test.

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