Table 1. De novo assembly contigs of two co-infection variant strains (Reo/PA/Layer/01224a/14 and Reo/PA/Layer/01224b/14) of avian orthoreovirus (ARV) isolated from ARV-affected young layer chickens.

Segment length (bp)	Contig name	Highest similarity to the reference ARV strain in GenBank	Identities (%)	SNVs	Mapped reads	Average coverage
3958	L1a	138 strain segment L1 lambda A gene (EU707933)	91	13	3936	125.82
3958	L1b	2408 strain segment L1 lambda A gene (AY641742)	91	4	1746	59.06
3829	L2a	AVS-B strain segment L2 lambda B gene (FR694192)	93	0	3106	106.79
3829	L2b	1733 strain segment L2 lambda B gene (KF741707)	90	0	1341	46.04
3907	L3a	AVS-B strain segment L3 lambda C gene (FR694193)	95	0	914	30.72
3907	L3b	138 strain segment L3 lambda C gene (EU707937)	92	1	5978	202.55
2283	M1a	138 strain segment M1 muA gene (AY557188)	91	0	3053	184.38
2283	M1b	AVS-B strain segment M1 muA gene (FR694194)	91	1	1168	65.44
2158	M2	Reo/PA/Broiler/05682/12 segment M2 muB gene (KM877329)	97	0	4256	254.01
1996	M3a	1017-1 strain segment M2 muNS gene (AY573905)	89	0	405	26.82
1996	M3b	S1133 strain segment M2 muNS gene (KF741761)	90	0	3069	204
1644	S1a	T1781 segment S1 sigma C genes (KC865792)	82	0	3560	271.28
1644	S1b	Reo/PA/Broiler/15511/13 segment S1 sigma C genes (KP731617)	98	0	564	44.63
1324	S2a	S1133 strain segment S2 sigma A gene (KF741763)	92	1	1759	174.96
1324	S2b	526 strain segment S2 sigma A gene (KF741703)	91	0	636	65.05
1202	S3a	1733 strain segment S3 sigma B gene (KF741714)	92	1	1178	134.3
1202	S3b	526 strain segment S3 sigma B gene (KF741704)	94	1	2175	246.3
1192	S4a	AVS-B strain segment S4 sigma NS gene (FR694200)	91	1	404	46.89
1192	S4b	526 strain segment S4 sigma NS gene (KF741705)	93	1	2138	247.95