Statistics and Breed-wide Allele Frequency - Shiloh Shepherd

Updated Jun 13, 2021

DLA Class I Haplotype Frequencies

DLA1 #STR typesShiloh Shepherd (n=11)Shiloh Shepherd, ISSA (n=233)
1001380 373 281 182--0.004
1035386 373 277 184--0.004
1045376 371 277 186--0.002
1052380 372 289 1840.230.380
1068380 373 287 1810.450.264
1165392 369 281 1820.230.225
1166388 379 277 1840.050.049
1167397 381 277 1840.050.064
1172390 369 289 188--0.006

DLA Class II Haplotype Frequencies

DLA2 #STR typesShiloh Shepherd (n=11)Shiloh Shepherd, ISSA (n=233)
2001343 324 284--0.004
2003343 324 282--0.006
2017343 322 2800.230.380
2022339 327 2820.050.049
2026351 324 284--0.004
2039345 327 276--0.002
2053343 324 2800.500.328
2080339 325 2760.230.225

Allele Frequencies

#Locus NameAlleleShiloh Shepherd (n=11)Shiloh Shepherd, ISSA (n=235)
1AHT121 880.090.002
92--0.002
980.180.158
1020.500.652
1040.090.105
1080.140.081
2AHT137 1310.050.198
1370.910.791
1390.050.009
147--0.002
3AHTH130 1230.140.175
1250.050.024
1270.770.686
1310.050.115
4AHTh171-A 2190.090.100
2230.360.355
2250.320.188
2330.230.350
235--0.006
5AHTh260 2380.140.064
2420.590.786
2460.230.085
2520.050.064
6AHTk211 87--0.134
890.230.230
910.050.062
950.730.574
7AHTk253 2880.820.874
2920.180.126
8C22.279 1160.680.714
1180.050.009
120--0.004
124--0.051
1260.270.222
9FH2001 1240.140.115
1320.180.261
140--0.009
1440.550.397
1480.140.218
10FH2054 148--0.058
1520.500.167
1560.180.329
160--0.041
1640.140.077
1680.180.259
176--0.071
11FH2848 2320.05--
2340.05--
236--0.009
2380.410.479
2400.450.442
2420.050.068
244--0.002
12INRA21 91--0.002
93--0.013
950.410.064
970.050.041
990.180.237
1010.360.643
13INU005 110--0.015
1240.590.327
1260.360.658
1320.05--
14INU030 144--0.009
1460.140.077
1480.140.064
1500.590.632
1520.140.218
15INU055 2100.640.498
212--0.004
214--0.028
2180.270.442
2200.090.028
16LEI004 850.640.590
950.360.410
17REN105L03 2270.140.043
2310.230.155
233--0.096
2350.050.283
2410.590.423
18REN162C04 2000.270.115
2040.050.030
2060.450.598
208--0.017
2120.230.239
19REN169D01 2120.230.223
214--0.004
2160.770.762
218--0.011
20REN169O18 136--0.004
1620.140.376
1640.090.120
1660.590.214
1680.140.286
1740.05--
21REN247M23 2680.500.381
2700.090.106
272--0.147
274--0.004
2780.410.362
22REN54P11 2260.640.545
2320.05--
2340.320.455
23REN64E19 139--0.122
147--0.011
1510.180.216
1530.090.107
1550.730.545
24VGL0760 12--0.028
130.050.041
15--0.006
18.2--0.034
19.20.090.276
20.20.050.154
21.20.500.175
22.20.320.252
23.2--0.034
25VGL0910 130.140.004
17.10.140.158
18.1--0.002
19.10.140.068
20.10.360.429
21.10.180.335
22.10.050.002
26VGL1063 100.050.130
120.770.784
13--0.004
140.090.075
150.050.006
180.05--
27VGL1165 140.140.002
150.140.152
16--0.043
170.090.143
190.050.011
220.230.115
250.230.286
26--0.041
280.140.207
28VGL1828 150.05--
170.090.011
190.860.983
21--0.006
29VGL2009 10--0.011
110.910.801
12--0.077
13--0.009
140.050.103
150.05--
30VGL2409 14--0.009
150.640.643
160.090.184
170.230.045
180.050.118
19--0.002
31VGL2918 130.180.043
140.270.158
19.3--0.120
20.30.180.256
21.30.360.389
22.3--0.034
32VGL3008 10--0.002
14--0.045
150.180.256
160.180.107
170.090.226
180.320.060
200.180.090
210.050.209
22--0.004
33VGL3235 12--0.002
140.550.538
150.270.165
160.140.286
170.050.009

Standard genetic assessment based on 33 autosomal STR loci

Shiloh Shepherd

  NNaNeHoHeF
Mean2465.3032.6640.5740.555-0.036
 SE 0.2920.2050.0320.0310.010

Shiloh Shepherd, ISSA

  NNaNeHoHeF
Mean2355.0612.6390.5700.552-0.034
 SE 0.3030.2000.0320.0310.010

Standard genetic assessment based on 7 STRs in the DLA region

Shiloh Shepherd

  NNaNeHoHeF
Mean2464.8572.6640.6200.591-0.050
 SE 0.4250.2840.0470.0460.004

Shiloh Shepherd, ISSA

  NNaNeHoHeF
Mean2354.8572.6550.6170.591-0.043
 SE 0.4250.2790.0490.0450.005

Standard genetic assessment for individual STR loci

Shiloh Shepherd

#LocusNNaNeHoHeF
1AHT12124662.2140.5740.548-0.047
2AHT13724641.4780.3310.323-0.023
3AHTH13024641.9120.5120.477-0.073
4AHTh171-A24653.4310.7460.709-0.053
5AHTh26024641.6380.4260.389-0.093
6AHTk21124642.4010.5760.5830.013
7AHTk25324621.2940.2460.227-0.082
8C22.27924651.7890.4650.441-0.054
9FH200124653.4370.7030.7090.008
10FH205424674.6130.7970.783-0.017
11FH284824672.3560.6250.576-0.086
12INRA2124662.2320.5230.5520.052
13INU00524641.9120.5550.477-0.163
14INU03024652.2140.5040.5480.081
15INU05524652.2490.5980.555-0.076
16LEI00424621.9320.4690.4820.028
17REN105L0324653.3680.7510.703-0.068
18REN162C0424652.3930.6170.582-0.060
19REN169D0124641.5830.3930.368-0.067
20REN169O1824663.6300.7770.725-0.073
21REN247M2324653.1670.7430.684-0.086
22REN54P1124631.9920.5820.498-0.169
23REN64E1924652.6100.6410.617-0.039
24VGL076024694.9900.8320.800-0.041
25VGL091024673.1880.6880.686-0.002
26VGL106324661.5760.3480.3660.049
27VGL116524695.5460.8320.820-0.015
28VGL182824641.0570.0550.054-0.021
29VGL200924661.4890.3400.328-0.035
30VGL240924662.1740.5390.5400.002
31VGL291824663.9030.7540.744-0.014
32VGL300824695.6300.8240.822-0.002
33VGL323524652.5270.5740.6040.050

Shiloh Shepherd, ISSA

#LocusNNaNeHoHeF
1AHT12123562.1400.5510.533-0.035
2AHT13723541.5020.3450.334-0.031
3AHTH13023541.9420.5170.485-0.066
4AHTh171-A23553.4000.7480.706-0.059
5AHTh26023541.5780.3970.366-0.085
6AHTk21123542.4720.5870.5950.014
7AHTk25323521.2830.2350.220-0.067
8C22.27923551.7810.4490.439-0.023
9FH200123553.4870.7010.7130.017
10FH205423574.5710.8120.781-0.039
11FH284823552.3280.6070.571-0.064
12INRA2123562.1020.5130.5240.022
13INU00523531.8510.5380.460-0.171
14INU03023552.1850.4740.5420.125
15INU05523552.2470.6030.555-0.086
16LEI00423521.9380.4620.4840.046
17REN105L0323553.3960.7620.706-0.080
18REN162C0423552.3270.6070.570-0.064
19REN169D0123541.5870.3870.370-0.047
20REN169O1823553.5290.7820.717-0.091
21REN247M2323553.2390.7530.691-0.090
22REN54P1123521.9840.5680.496-0.146
23REN64E1923552.7040.6670.630-0.058
24VGL076023595.0320.8420.801-0.051
25VGL091023573.0610.6670.6730.010
26VGL106323551.5680.3630.362-0.002
27VGL116523595.3950.8160.815-0.002
28VGL182823531.0350.0340.034-0.013
29VGL200923551.5180.3550.341-0.039
30VGL240923562.1580.5380.537-0.003
31VGL291823563.8570.7560.741-0.021
32VGL300823595.3770.8250.814-0.013
33VGL323523552.5060.5510.6010.083

Standard genetic assessment for 7 STRs in the DLA region

Shiloh Shepherd

#LocusNNaNeHoHeF
1DLA I-3CCA24672.0880.5550.521-0.065
2DLA I-4ACA24663.6090.7500.723-0.037
3DLA I-4BCT24643.5280.7540.717-0.052
4DLA113124652.7550.6600.637-0.036
55ACA24641.6930.4340.409-0.059
65ACT24643.1790.7230.685-0.054
75BCA24641.7980.4650.444-0.047

Shiloh Shepherd, ISSA

#LocusNNaNeHoHeF
1DLA I-3CCA23572.1040.5470.525-0.042
2DLA I-4ACA23563.5910.7520.722-0.042
3DLA I-4BCT23543.5020.7560.714-0.059
4DLA113123552.7090.6540.631-0.036
55ACA23541.6960.4230.410-0.031
65ACT23543.1760.7310.685-0.067
75BCA23541.8060.4570.446-0.024