Whole genome sequencing and phylogenetic analysis of human metapneumovirus strains from Kenya and Zambia

BMC Genomics

Table 1 Sequencing results and data assembly metrics for the five HMPV genomes. Data assembly parameters are provided in the table footnotes

Strain	Total reads	HMPV reads^a	N50^b	Genome length	Ct^c	Mean coverage^d	GenBank accession	Sub-group^e
HMPV/01/KEN/2015	916,378	42%	12,561	13,101	27.4	14,430.68	MK588634	A2b
HMPV/02/KEN/2012	653,642	38%	13,032	13,104	26.0	4856.963	MK588637	B2
HMPV/03/KEN/2013	684,104	39%	12,962	13,134	21.0	7207.968	MK588633	A2b
HMPV/04/KEN/2012	766,948	22%	12,489	13,097	22	6764.68	MK588636	B1
HMPV/05/ZAM/2012	962,668	26%	13,011	13,145	27.2	10,444.95	MK588635	A2a

^aPercentage of sequencing reads classified as HMPV
^bN50 length (a measure of genome assembly completeness) is calculated by summing lengths of assembled contigs from the longest to the shortest and determining the point at which 50% of the total assembly size is reached.
^crRT-PCR cycle threshold value.
^dCalculated by dividing the per-position coverage output (described in Methods) by respective genome length
^eAs assigned by phylogenetic analyses.

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