MALVIRUS: an integrated application for viral variant analysis

BMC Bioinformatics

Table 2 Samples considered in the experimental evaluation

SRA ID	Technology	Coverage	GISAID ID	Lineage
ERR5026409	ILL	62	730750	A.23.1
ERR5040238	ILL	725	756390	A.23.1
ERR5053597	ILL	366	768932	A.23.1
ERR5174710	ILL	753	858801	A.23.1
ERR5189961	ILL	707	862989	A.23.1
ERR5074718	ILL	123	706608	AP.1
ERR4082432	ONT	115	425449	B.1
ERR4246852	ONT	285	457212	B.1.1
ERR4437884	ILL	2200	489377	B.1.1.134
ERR4584869	ILL	1600	532794	B.1.1.253
ERR4668432	ILL	483	575675	B.1.1.255
ERR4615778	ILL	847	539900	B.1.1.269
ERR4439830	ILL	17	499533	B.1.1.323
ERR4438180	ILL	367	488906	B.1.157
ERR4848290	ILL	509	643640	B.1.160
ERR5011401	ILL	838	710801	B.1.1.7
ERR5042696	ILL	1000	760798	B.1.1.7
ERR5052852	ILL	457	769604	B.1.1.7
ERR5183522	ILL	726	846539	B.1.1.7
ERR5184915	ILL	854	833702	B.1.1.7
ERR4759202	ILL	105	595464	B.1.177
ERR4860691	ILL	401	646554	B.1.177.19
ERR5049949	ILL	804	767261	B.1.177.8
ERR5082229	ONT	136	680109	B.1.258.5
ERR5041219	ILL	815	762499	B.1.351
ERR5074602	ONT	27	764231	B.1.351
ERR5093255	ILL	226	819798	B.1.351
ERR5178844	ILL	141	812064	B.1.351
ERR5179824	ILL	631	821134	B.1.351
ERR4651735	ILL	430	567575	B.1.36.17
SRR13261896	ILL	10	708631	B.1.366
ERR4973704	ILL	467	655669	B.1.36.9
SRR13606385	ILL	55	903433	B.1.427
ERR5042239	ILL	983	760883	B.1.525
ERR5176822	ILL	459	797195	B.1.525
ERR5181246	ILL	564	836880	B.1.525
ERR5181360	ILL	633	836839	B.1.525
ERR5190001	ILL	89	863189	B.1.525
ERR4366428	ONT	13	493559	B.23
SRR11494747	ILL	186	419918	B.31
SRR13530301	ILL	58	873257	P.1

For each sample, we report the SRA Accession ID, the technology used (ILLumina or Oxford Nanopore Techonology), the coverage in terms of number of bases (in millions), the corresponding GISAID Accession ID (for ease of presentation we removed the EPI_ISL_ prefix), and the Pango lineage computed using pangolin on the corresponding assembly downloaded from GISAID

ISSN: 1471-2105