List of sequence alignments used in CoV2ID


SARS-CoV-2 virus



Database Reference Number of sequences Alignment length(nt) Description Alignment visualization Percentage of identical sites Percentage of pairwise identity List of oligonucleotides
CoV2ID_alig01 106 30016 All human SARS-CoV-2 complete genomes from the NCBI Virus resource (www.ncbi.nlm.nih.gov/labs/virus/), available at 18-03-2020. The multiple sequence alignment was performed using an optimized version of MUSCLE running at the NCBI Variation Resource. Show alignment 62.40% 99.40% Search
CoV2ID_alig02 3251 34908 All human SARS-CoV-2 complete genomes with high coverage from the GISAID initiative (www.gisaid.org/), downloaded at 01-05-2020. The multiple sequence alignment was performed using the default parameters of the MAFFT webserver (https://mafft.cbrc.jp/alignment/server/). Show alignment 88.60% 99.96% Search
CoV2ID_alig03 7 38063 Alignment of the consensus sequence of each human coronavirus. The consensus were obtained by aligning all complete available genomes for each virus obtained from the NCBI Virus resource (www.ncbi.nlm.nih.gov/labs/virus/)." Show alignment 14.70% 45.30% Search