List of sequence alignments used in EbolaID


Ebolavirus



Database Reference Number of sequences Alignment length (nt) Description Alignment visualization Percentage of identical sites Percentage of pairwise identity List of oligonucleotides
EbolaID_alig01 99 22790 Complete or near complete genome sequences from different species of the Ebolavirus genus (Bundibugyo, Reston, Sudan, Tai Forest and Zaire ebolavirus). Sequences retrieved from the NCBI Entrez Nucleotide database. Show alignment 20.8% 71.8% Search
EbolaID_alig02 101 18960 Alignment of 101 Ebola virus complete genomes used by Gire et al. Science 345, 1369 (2014). The alignment includes 81 sequences from the 2014 outbreak and 20 sequences from earlier outbreaks (from 1976 to 2008). Show alignment 90.9% 98.9% Search
EbolaID_alig03 124 19560 Alignment of 124 ebolavirus genomes used by Gire et al. Science 345, 1369 (2014). Show alignment 34.8% 85.7% Search
EbolaID_alig04 160 24236 Multiple sequence alignment of 158 Ebola virus and 2 Marbug virus sequences featured in the UCSC Genome Browser. June 2014 (eboVir3) Ebola Portal. Sequences identified with accession numbers. Downloaded from here. Show alignment 16% 85.5% Search
EbolaID_alig05 160 24236 Multiple sequence alignment of 158 Ebola virus and 2 Marbug virus sequences featured in the UCSC Genome Browser. June 2014 (eboVir3) Ebola Portal. Sequences identified with strain names. Downloaded from here. Show alignment 16% 85.5% Search
EbolaID_alig06 215 20333 Multiple sequence alignment of 240 complete Ebola virus genomes featured in VIPR Ebola database (January 2016). Show alignment 37% 92.4% Search
EbolaID_alig07 1611 19241 Multiple sequence alignment with 1610 full Ebola virus (EBOV) genomes sampled between 17 March 2014 and 24 October 2015 in West Africa (further details on Gytis Dudas et al. 2016). The alignment includes the reference genome NC_002549.1. The sequences were aligned using MAFFT and edited manually. Show alignment 5.6% 98.6% Search


Marburgvirus

Database Reference Number of sequences Alignment length (nt) Description Alignment visualization Percentage of identical sites Percentage of pairwise identity List of oligonucleotides
Marburg_alig01 87 20324 Multiple sequence alignment of 1 Ebola virus (reference genome) and 86 Marbug virus sequences retrieved from NCBI Show alignment 33.4 88.9 Search