A novel totivirus and piscine reovirus (PRV) in Atlantic salmon (Salmo salar) with cardiomyopathy syndrome (CMS)

Table 1 Estimation of genetic variation between HSMI PRV genome segments and CMS PRV sequence reads.

Segment	Length (nt)	Transversions			Transitions			Amino acid changes			Coverage¹	Depth²
		100%³	>50%⁴	≥2⁵	100%	>50%	≥2	100%	>50%	≥2	-	-
L1	3916	0	3	8	6	31	72	2	1	9	88.6%	13.55
L2	3935	0	5	5	1	60⁶	44⁷	0	4	11	96.3%	20.02
L3	3911	0	0	3	0	3	17	0	0	0	85.3%	17.43
M1	2383	0	1	0	13	0	3	0	0	0	63.7%	6.45
M2	2179	0	0	2	0	0	3	0	0	4	77.6%	28.92
M3	2403	0	0	0	1	0	6	0	0	2	84.7%	8.03
S1	1040	0	0	0	3	0	0	0	0	0	34.2%	3.15
S2	1329	0	0	0	0	3	0	0	0	0	33.1%	3.02
S3	1143	0	0	0	2	5	1	0	0	0	46.5%	3.00
S4	1081	0	0	0	0	0	0	0	0	0	54.0%	7.97

1 - Relative part of HSMI PRV segment covered by at least two reads in the CMS PRV sequence dataset.
2 - Average number of times each nucleotide position was sequenced (full length fragment).
3 - All CMS PRV reads exhibited the indicated feature.
4 - The majority of the CMS PRV reads exhibited the indicated feature.
5 - At least two CMS PRV reads exhibited the indicated feature.
6 - The majority of these transitions were found in the 5'-half of L2.
7 - The majority of these transitions were found in the 3'-half of L2.

ISSN: 1743-422X