Table 1

Allele, genotype, and haplotype frequencies of BSE-affected cattle and controls
Pooled breeds from Germany and Switzerland:
German Holstein, German Fleckvieh, Swiss Schwarzfleck, Swiss Simmental × Red Holstein,













Allele frequency
Genotype frequency



23 bp indel
 n
 D
 I
 P
D/D
 D/I
 I/I
 P
 HWEpval
Total
 1244
 0.65
 0.36
 0.0105
0.41
 0.47
 0.12
 0.0207
 0.6559
Control
 574
 0.61
 0.39

0.37
 0.47
 0.16

BSE
 670
 0.68
 0.32

0.45
 0.47
 0.09














Allele frequency
Genotype frequency



12 bp indel
 n
 D
 I
 P
D/D
 D/I
 I/I
 P
 HWEpval
Total
 1244
 0.56
 0.44
 0.1209
0.33
 0.47
 0.20
 0.1731
 0.3931
Control
 574
 0.54
 0.46

0.31
 0.46
 0.23

BSE
 670
 0.58
 0.42

0.34
 0.49
 0.17












23 & 12 bp indel
Haplotype frequency












n
 D-D
 D-I
 I-I
 P




Total
 1244
 0.56
 0.09
 0.36
 0.0169




Control
 574
 0.54
 0.07
 0.39





BSE
 670
 0.58
 0.10
 0.32
















Pooled breeds from Switzerland:
Swiss Schwarzfleck, Swiss Simmental × Red Holstein













Allele frequency
Genotype frequency



23 bp indel
 n
 D
 I
 P
D/D
 D/I
 I/I
 P
 HWEpval
Total
 588
 0.59
 0.42
 0.0295
0.33
 0.50
 0.16
 0.0614
 0.6306
Control
 294
 0.54
 0.46

0.29
 0.50
 0.21

BSE
 294
 0.63
 0.37

0.37
 0.51
 0.12














Allele frequency
Genotype frequency



12 bp indel
 n
 D
 I
 P
D/D
 D/I
 I/I
 P
 HWEpval
Total
 588
 0.48
 0.52
 0.4091
0.24
 0.48
 0.28
 0.5795
 0.6396
Control
 294
 0.46
 0.54

0.23
 0.46
 0.31

BSE
 294
 0.50
 0.50

0.25
 0.50
 0.25












23 & 12 bp indel
Haplotype frequency












n
 D-D
 D-I
 I-I
 P




Total
 588
 0.48
 0.11
 0.42
 0.0218




Control
 294
 0.46
 0.08
 0.46





BSE
 294
 0.49
 0.14
 0.37
















Pooled Brown breeds from Germany and Switzerland:
German Brown, Swiss Brown













Allele frequency
Genotype frequency



23 bp indel
 n
 D
 I
 P
D/D
 D/I
 I/I
 P
 HWEpval
Total
 516
 0.42
 0.59
 0.5357
0.20
 0.43
 0.37
 0.3574
 0.0630
Control
 288
 0.40
 0.60

0.17
 0.46
 0.37

BSE
 228
 0.43
 0.57

0.24
 0.39
 0.38














Allele frequency
Genotype frequency



12 bp indel
 n
 D
 I
 P
D/D
 D/I
 I/I
 P
 HWEpval
Total
 516
 0.23
 0.78
 0.1432
0.04
 0.38
 0.58
 0.1317
 0.4117
Control
 288
 0.21
 0.79

0.02
 0.38
 0.60

BSE
 228
 0.26
 0.74

0.07
 0.39
 0.54












23 & 12 bp indel
Haplotype frequency












n
 D-D
 D-I
 I-I
 P




Total
 516
 0.23
 0.19
 0.58
 0.2439




Control
 288
 0.21
 0.20
 0.59





BSE
 228
 0.26
 0.17
 0.57





Haase et al. BMC Genetics 2007 8:15   doi:10.1186/1471-2156-8-15