Statistics and Breed-wide Allele Frequency - Shiloh Shepherd

Updated Aug 9, 2020

DLA Class I Haplotype Frequencies

DLA1 #STR typesShiloh Shepherd (n=6)Shiloh Shepherd, ISSA (n=212)
1001380 373 281 182--0.005
1035386 373 277 184--0.005
1045376 371 277 186--0.002
1052380 372 289 1840.330.363
1068380 373 287 1810.420.262
1165392 369 281 1820.170.241
1166388 379 277 184--0.054
1167397 381 277 1840.080.061
1172390 369 289 188--0.007

DLA Class II Haplotype Frequencies

DLA2 #STR typesShiloh Shepherd (n=6)Shiloh Shepherd, ISSA (n=212)
2001343 324 284--0.005
2003343 324 282--0.007
2017343 322 2800.330.363
2022339 327 282--0.054
2026351 324 284--0.005
2039345 327 276--0.002
2053343 324 2800.500.323
2080339 325 2760.170.241

Allele Frequencies

#Locus NameAlleleShiloh Shepherd (n=6)Shiloh Shepherd, ISSA (n=213)
1AHT121 880.080.002
92--0.002
980.170.157
1020.500.655
1040.080.103
1080.170.080
2AHT137 1310.080.200
1370.920.789
139--0.009
147--0.002
3AHTH130 123--0.178
1250.080.019
1270.830.681
1310.080.122
4AHTh171-A 2190.080.094
2230.330.345
2250.420.190
2330.170.364
235--0.007
5AHTh260 2380.170.068
2420.500.798
2460.250.075
2520.080.059
6AHTk211 87--0.129
890.170.244
910.080.066
950.750.561
7AHTk253 2880.750.878
2920.250.122
8C22.279 1160.750.704
118--0.009
120--0.005
124--0.054
1260.250.228
9FH2001 1240.250.124
1320.170.258
140--0.009
1440.420.401
1480.170.207
10FH2054 148--0.063
1520.500.162
1560.170.326
160--0.045
1640.080.073
1680.250.263
176--0.068
11FH2848 236--0.009
2380.420.462
2400.580.455
242--0.070
244--0.002
12INRA21 91--0.002
93--0.014
950.330.066
970.080.045
990.250.246
1010.330.627
13INU005 110--0.016
1240.670.326
1260.330.657
14INU030 144--0.009
1460.080.085
1480.170.068
1500.670.620
1520.080.218
15INU055 2100.750.514
212--0.005
214--0.031
2180.170.420
2200.080.031
16LEI004 850.580.570
950.420.430
17REN105L03 2270.080.047
2310.170.157
233--0.094
2350.080.286
2410.670.415
18REN162C04 2000.420.117
2040.080.026
2060.330.589
208--0.016
2120.170.251
19REN169D01 2120.250.207
214--0.005
2160.750.777
218--0.012
20REN169O18 136--0.005
1620.170.369
164--0.129
1660.670.221
1680.170.277
21REN247M23 2680.500.371
2700.170.094
272--0.160
274--0.005
2780.330.371
22REN54P11 2260.670.556
2340.330.444
23REN64E19 139--0.129
147--0.012
1510.330.209
1530.080.117
1550.580.533
24VGL0760 12--0.026
13--0.042
15--0.007
18.2--0.035
19.20.080.272
20.20.080.162
21.20.420.167
22.20.420.251
23.2--0.038
25VGL0910 130.170.005
17.10.170.164
18.1--0.002
19.1--0.070
20.10.330.423
21.10.250.333
22.10.080.002
26VGL1063 100.080.134
120.670.772
13--0.005
140.170.082
150.080.007
27VGL1165 140.170.002
150.170.155
16--0.047
170.170.143
19--0.012
220.170.122
250.170.279
26--0.045
280.170.195
28VGL1828 170.080.012
190.920.981
21--0.007
29VGL2009 10--0.007
110.920.803
12--0.075
13--0.009
140.080.106
30VGL2409 14--0.009
150.750.653
160.080.181
170.170.045
18--0.110
19--0.002
31VGL2918 130.080.047
140.250.169
19.3--0.131
20.30.330.232
21.30.330.383
22.3--0.038
32VGL3008 10--0.002
14--0.049
150.170.239
160.250.106
170.080.230
180.250.061
200.170.099
210.080.209
22--0.005
33VGL3235 12--0.002
140.500.538
150.250.150
160.170.300
170.080.009

Standard genetic assessment based on 33 autosomal STR loci

  NNaNeHoHeF
Shiloh ShepherdMean63.3642.4740.5910.524-0.137
 SE 0.2000.1910.0420.0310.048
  NNaNeHoHeF
Shiloh Shepherd, ISSAMean2135.0612.6680.5720.554-0.032
 SE 0.3030.2060.0330.0310.010

Standard genetic assessment based on 7 STRs in the DLA region

  NNaNeHoHeF
Shiloh ShepherdMean63.0002.2780.5240.508-0.069
 SE 0.2860.2730.0520.0640.054
  NNaNeHoHeF
Shiloh Shepherd, ISSAMean2134.8572.7210.6320.602-0.049
 SE 0.4250.2790.0450.0430.003

Standard genetic assessment for individual STR loci

#LocusNNaNeHoHeF
1AHT121653.1300.6670.6810.020
2AHT137621.1800.1670.153-0.091
3AHTH130631.4120.3330.292-0.143
4AHTh171-A643.1300.8330.681-0.224
5AHTh260642.8800.8330.653-0.277
6AHTk211631.6740.3330.4030.172
7AHTk253621.6000.5000.375-0.333
8C22.279621.6000.5000.375-0.333
9FH2001643.4290.8330.708-0.176
10FH2054642.8800.5000.6530.234
11FH2848621.9460.8330.486-0.714
12INRA21643.4290.6670.7080.059
13INU005621.8000.6670.444-0.500
14INU030642.0570.6670.514-0.297
15INU055631.6740.5000.403-0.241
16LEI004621.9460.5000.486-0.029
17REN105L03642.0570.5000.5140.027
18REN162C04643.1300.6670.6810.020
19REN169D01621.6000.5000.375-0.333
20REN169O18632.0000.6670.500-0.333
21REN247M23632.5710.3330.6110.455
22REN54P11621.8000.6670.444-0.500
23REN64E19632.1820.5000.5420.077
24VGL0760642.7690.8330.639-0.304
25VGL0910654.2351.0000.764-0.309
26VGL1063642.0570.1670.5140.676
27VGL1165666.0001.0000.833-0.200
28VGL1828621.1800.1670.153-0.091
29VGL2009621.1800.1670.153-0.091
30VGL2409631.6740.5000.403-0.241
31VGL2918643.4290.6670.7080.059
32VGL3008665.1430.8330.806-0.034
33VGL3235642.8801.0000.653-0.532

Standard genetic assessment for 7 STRs in the DLA region

#LocusNNaNeHoHeF
1DLA I-3CCA631.6740.5000.403-0.241
2DLA I-4ACA643.1300.6670.6810.020
3DLA I-4BCT643.1300.6670.6810.020
4DLA1131632.6670.6670.625-0.067
55ACA621.3850.3330.278-0.200
65ACT632.5710.5000.6110.182
75BCA621.3850.3330.278-0.200