Statistics and Breed-wide Allele Frequency - Shikoku

Updated Aug 9, 2020

DLA Class I Haplotype Frequencies

DLA1 #STR typesShikoku (n=48)
1054382 379 277 1840.01
1133378 365 287 1720.51
1191388 373 260 1860.21
1229381 369 277 1880.10
1230386 369 289 1840.02
1231389 371 277 1860.13
1232380 365 260 1860.02

DLA Class II Haplotype Frequencies

DLA2 #STR typesShikoku (n=48)
2012345 322 2800.02
2018339 324 2840.21
2056339 323 2860.05
2071339 322 2860.02
2077347 325 2860.51
2106341 325 2860.01
2122351 325 2860.13
2123339 323 2920.05

Allele Frequencies

#Locus NameAlleleShikoku (n=48)
1AHT121 960.40
980.04
1000.15
1020.14
1060.23
1080.05
2AHT137 1310.70
1330.16
1470.09
1510.05
3AHTH130 1150.78
1170.01
1210.20
1330.01
4AHTh171-A 2190.96
2210.01
2370.03
5AHTh260 2360.30
2460.17
2480.53
6AHTk211 890.82
910.04
950.14
7AHTk253 2820.35
2860.10
2880.42
2900.07
2920.04
2940.01
8C22.279 1100.29
1160.39
1180.27
1220.04
1300.01
9FH2001 1320.17
1360.01
1400.30
1440.19
1480.19
1520.01
1540.14
10FH2054 1480.01
1520.03
1560.29
1600.10
1640.05
1680.51
11FH2848 2340.01
2380.97
2400.02
12INRA21 950.01
970.53
990.11
1010.34
13INU005 1100.04
1240.67
1260.29
14INU030 1440.36
1460.32
1520.31
15INU055 2100.04
2140.02
2200.29
2220.63
2240.02
16LEI004 950.36
970.60
1070.02
1090.01
17REN105L03 2270.29
2310.19
2330.32
2390.08
2410.11
18REN162C04 2000.19
2060.80
2100.01
19REN169D01 2020.06
2120.61
2140.01
2160.31
20REN169O18 1600.30
1640.58
1680.04
1720.07
21REN247M23 2680.34
2700.20
2720.46
22REN54P11 2300.08
2360.27
2380.65
23REN64E19 1450.05
1470.02
1510.89
1530.04
24VGL0760 120.60
130.06
140.09
21.20.02
23.20.22
25VGL0910 17.10.10
18.10.31
19.10.55
20.10.01
24.10.01
25.10.01
26VGL1063 130.03
140.80
150.15
160.01
200.01
27VGL1165 200.71
220.08
230.01
260.02
28.20.18
28VGL1828 180.13
190.57
200.09
210.13
220.08
29VGL2009 100.09
110.19
130.55
140.03
150.14
30VGL2409 13.30.39
150.28
15.30.02
160.20
180.11
31VGL2918 130.23
140.43
150.08
17.30.22
19.30.04
32VGL3008 110.01
120.42
130.03
150.41
170.07
180.06
33VGL3235 120.05
150.05
160.17
180.73

Standard genetic assessment based on 33 autosomal STR loci

  NNaNeHoHeF
ShikokuMean484.4242.4210.5210.5270.012
 SE 0.1970.1530.0340.0320.019

Standard genetic assessment based on 7 STRs in the DLA region

  NNaNeHoHeF
ShikokuMean484.7142.5000.4640.5880.213
 SE 0.3890.1480.0270.0280.020

Standard genetic assessment for individual STR loci

#LocusNNaNeHoHeF
1AHT1214863.9490.8330.747-0.116
2AHT1374841.9120.5210.477-0.092
3AHTH1304841.5390.3960.350-0.130
4AHTh171-A4831.0880.0830.081-0.035
5AHTh2604832.4920.6250.599-0.044
6AHTk2114831.4340.2920.3030.037
7AHTk2534863.1540.6670.6830.024
8C22.2794853.2380.7500.691-0.085
9FH20014874.8100.7080.7920.106
10FH20544862.7760.5210.6400.186
11FH28484831.0650.0630.061-0.025
12INRA214842.4180.4580.5860.218
13INU0054831.8820.3960.4690.156
14INU0304832.9860.6460.6650.029
15INU0554852.0910.4170.5220.201
16LEI0044842.0060.5210.502-0.039
17REN105L034854.0890.7920.755-0.048
18REN162C044831.4740.2710.3210.157
19REN169D014842.0860.5210.521-0.000
20REN169O184842.2800.5420.5610.035
21REN247M234832.7220.6670.633-0.054
22REN54P114832.0100.6250.503-0.244
23REN64E194841.2680.2290.211-0.085
24VGL07604852.3470.5830.574-0.016
25VGL09104862.4180.6460.586-0.101
26VGL10634851.5020.3130.3340.065
27VGL11654851.8500.3960.4590.138
28VGL18284852.6650.6670.625-0.067
29VGL20094852.7170.6040.6320.044
30VGL24094853.5670.7500.720-0.042
31VGL29184853.4310.7290.709-0.029
32VGL30084862.8660.6460.6510.008
33VGL32354841.7700.3330.4350.234

Standard genetic assessment for 7 STRs in the DLA region

#LocusNNaNeHoHeF
1DLA I-3CCA4873.0180.5420.6690.190
2DLA I-4ACA4852.8010.5210.6430.190
3DLA I-4BCT4842.6960.5210.6290.172
4DLA11314842.5140.4380.6020.274
55ACA4852.5790.4580.6120.251
65ACT4842.1140.4580.5270.130
75BCA4841.7760.3130.4370.285