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Table 3 Summary of CNVR detected for each line and genotyping panel

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

Line SNP panela Number of CNVR Number of deletions Number of duplications Number of complex CNVRc Number of CNVR with a frequency > 1%d (maximum)
Singletons N ≥ 2b Singletons N ≥ 2b
W1 50K w 625 89 85 286 98 67 5 (5.7)
600K 251 101 44 86 12 8 41 (52.8)
W2 50K w 562 60 43 265 139 55 2 (1.2)
50K b 576 57 40 243 176 60 10 (2.2)
600K 586 128 56 331 50 21 13 (46.4)
Hybrids 600K 1218 79 30 933 150 25 29 (35.1)
B1 50K b 1146 92 199 419 230 284 17 (2.8)
600K 440 254 110 50 12 10 73 (33.6)
B2 42K 569 167 95 128 79 100 19 (13.9)
  1. aw white-egg lines, b brown-egg lines
  2. bN ≥ 2 = CNVR observed in at least two individuals
  3. cComplex CNVR = CNVR within which both deletions and duplications were observed
  4. dCNVR with a frequency higher than 1% within line and panel, calculated as the number of individuals with the CNVR divided by number of individuals genotyped that passed quality control (see Table 2 column 4)