Detection of copy number variations in brown and white layers based on genotyping panels with different densities

Table 4 Summary of CNVR per chromosome for all panels

Chr	Chr length (Mb)	Merged CNVR^a	Merged CNVR N ≥ 2^b		Intersected CNVR N ≥ 2^c
Chr	Chr length (Mb)	Number	Number	Fraction of chr covered^d	Number	Fraction of chr covered^d	Genes^e
1	195.3	544	234	0.370	378	0.111	0.050
2	148.8	435	186	0.322	264	0.101	0.036
3	110.4	317	138	0.321	192	0.089	0.036
4	90.2	258	113	0.389	172	0.103	0.042
5	59.6	184	85	0.394	136	0.145	0.076
6	35.0	135	59	0.362	87	0.107	0.064
7	36.2	86	46	0.522	96	0.178	0.100
8	28.8	79	38	0.429	68	0.128	0.061
9	23.4	63	37	0.497	67	0.192	0.091
10	19.9	72	38	0.452	63	0.148	0.078
11	19.4	55	27	0.432	51	0.112	0.061
12	19.9	54	27	0.528	58	0.171	0.111
13	17.7	61	26	0.480	43	0.183	0.084
14	15.1	46	26	0.457	47	0.164	0.094
15	12.7	22	18	0.760	55	0.258	0.141
16	0.5	1	1	0.979	2	0.923	0.564
17	10.4	26	16	0.677	44	0.210	0.102
18	11.2	30	18	0.523	39	0.158	0.084
19	10.0	17	12	0.786	40	0.186	0.127
20	14.3	43	20	0.495	39	0.175	0.085
21	6.8	35	17	0.456	30	0.156	0.078
22	4.1	8	5	0.664	17	0.199	0.068
23	5.7	21	13	0.593	28	0.164	0.091
24	6.3	24	12	0.626	28	0.172	0.111
25	2.2	4	5	0.701	16	0.203	0.092
26	5.3	25	16	0.485	22	0.167	0.083
27	5.2	24	18	0.698	27	0.255	0.183
28	4.7	18	13	0.622	30	0.243	0.143

Chr chromosome
^aMerged CNVR = All CNVR merged across all lines; 2687 CNVR in total
^bCommon CNVR N ≥ 2 = Merged CNVR observed in at least two individuals within a line, merged across all lines; 1264 CNVR in total
^cCommon intersected CNVR N ≥ 2 = Intersected CNVR observed in at least two individuals within a line, merged across all lines; 2139 CNVRs in total
^dFraction of chromosome covered with CNVR
^eFraction of CNVR overlapping with genes

ISSN: 1297-9686