Statistics and Breed-wide Allele Frequency - Shikoku

Updated Sep 7, 2025

DLA Class I Haplotype Frequencies

DLA1 #	STR types	Shikoku (n=207)
1054	382 379 277 184	0.019
1091	381 371 277 181	0.005
1133	378 365 287 172	0.517
1191	388 373 260 186	0.184
1229	381 369 277 188	0.092
1230	386 369 289 184	0.017
1231	389 371 277 186	0.085
1232	380 365 260 186	0.082

DLA Class II Haplotype Frequencies

DLA2 #	STR types	Shikoku (n=207)
2012	345 322 280	0.082
2018	339 324 284	0.184
2056	339 323 286	0.072
2067	343 322 284	0.005
2071	339 322 286	0.017
2077	347 325 286	0.517
2106	341 325 286	0.019
2122	351 325 286	0.085
2123	339 323 292	0.019

Allele Frequencies

#	Locus Name	Allele	Shikoku (n=208)
1	AHT121	96	0.389
		98	0.099
		100	0.180
		102	0.142
		106	0.151
		108	0.034
		110	0.002
		114	0.002
2	AHT137	131	0.762
		133	0.130
		147	0.067
		151	0.041
3	AHTH130	115	0.813
		117	0.002
		119	0.005
		121	0.161
		125	0.005
		127	0.005
		133	0.010
4	AHTh171-A	219	0.962
		221	0.022
		235	0.002
		237	0.014
5	AHTh260	236	0.346
		246	0.144
		248	0.510
6	AHTk211	89	0.815
		91	0.036
		95	0.149
7	AHTk253	282	0.308
		286	0.173
		288	0.363
		290	0.022
		292	0.113
		294	0.022
8	C22.279	110	0.236
		116	0.423
		118	0.269
		122	0.053
		130	0.019
9	FH2001	132	0.111
		136	0.036
		140	0.286
		144	0.171
		148	0.231
		152	0.014
		154	0.147
		158	0.005
10	FH2054	148	0.005
		152	0.026
		156	0.353
		160	0.113
		164	0.063
		168	0.425
		172	0.014
11	FH2848	230	0.038
		234	0.005
		238	0.858
		240	0.099
12	INRA21	95	0.002
		97	0.469
		99	0.127
		101	0.401
13	INU005	110	0.048
		124	0.656
		126	0.293
		130	0.002
14	INU030	144	0.377
		146	0.368
		152	0.255
15	INU055	210	0.041
		214	0.005
		220	0.310
		222	0.639
		224	0.005
16	LEI004	95	0.387
		97	0.529
		107	0.058
		109	0.026
17	REN105L03	227	0.380
		231	0.137
		233	0.252
		239	0.144
		241	0.087
18	REN162C04	200	0.115
		206	0.875
		210	0.010
19	REN169D01	202	0.053
		212	0.538
		214	0.005
		216	0.404
20	REN169O18	160	0.356
		164	0.565
		168	0.019
		172	0.060
21	REN247M23	268	0.445
		270	0.101
		272	0.454
22	REN54P11	230	0.094
		236	0.243
		238	0.663
23	REN64E19	145	0.089
		147	0.014
		151	0.851
		153	0.046
24	VGL0760	12	0.550
		13	0.103
		14	0.101
		21.2	0.005
		23.2	0.240
25	VGL0910	17.1	0.127
		18.1	0.272
		19.1	0.534
		20.1	0.043
		24.1	0.022
		25.1	0.002
26	VGL1063	13	0.050
		14	0.781
		15	0.156
		16	0.005
		19	0.005
		20	0.002
27	VGL1165	20	0.726
		22	0.087
		23	0.005
		26	0.012
		28.2	0.171
28	VGL1828	18	0.101
		19	0.502
		20	0.154
		21	0.144
		22	0.099
29	VGL2009	10	0.053
		11	0.166
		13	0.649
		14	0.019
		15	0.113
30	VGL2409	13.3	0.377
		14	0.010
		14.3	0.002
		15	0.236
		15.3	0.026
		16	0.252
		17	0.024
		18	0.072
31	VGL2918	13	0.255
		14	0.481
		15	0.050
		16	0.005
		17.3	0.180
		19.3	0.029
32	VGL3008	11	0.002
		12	0.430
		13	0.058
		15	0.373
		16	0.007
		17	0.050
		18	0.079
33	VGL3235	12	0.070
		15	0.067
		16	0.106
		17	0.012
		18	0.745

Standard genetic assessment based on 33 autosomal STR loci

Shikoku

		N	Na	Ne	Ho	He	F
	Mean	208	4.939	2.458	0.532	0.532	-0.002
	SE		0.264	0.161	0.031	0.031	0.011

Standard genetic assessment based on 7 STRs in the DLA region

Shikoku

		N	Na	Ne	Ho	He	F
	Mean	208	5.143	2.490	0.563	0.589	0.044
	SE		0.374	0.135	0.024	0.025	0.009

Standard genetic assessment for individual STR loci

Shikoku

#	Locus	N	Na	Ne	Ho	He	F
1	AHT121	208	8	4.201	0.817	0.762	-0.073
2	AHT137	208	4	1.656	0.428	0.396	-0.080
3	AHTH130	208	7	1.457	0.293	0.314	0.065
4	AHTh171-A	208	4	1.081	0.077	0.075	-0.029
5	AHTh260	208	3	2.498	0.606	0.600	-0.010
6	AHTk211	208	3	1.454	0.356	0.312	-0.139
7	AHTk253	208	6	3.703	0.745	0.730	-0.021
8	C22.279	208	5	3.224	0.721	0.690	-0.045
9	FH2001	208	8	5.013	0.769	0.801	0.039
10	FH2054	208	7	3.091	0.601	0.676	0.112
11	FH2848	208	4	1.337	0.264	0.252	-0.048
12	INRA21	208	4	2.518	0.630	0.603	-0.045
13	INU005	208	4	1.927	0.471	0.481	0.020
14	INU030	208	3	2.919	0.635	0.657	0.035
15	INU055	208	5	1.973	0.413	0.493	0.162
16	LEI004	208	4	2.307	0.606	0.567	-0.069
17	REN105L03	208	5	3.921	0.745	0.745	-0.000
18	REN162C04	208	3	1.284	0.202	0.221	0.086
19	REN169D01	208	4	2.194	0.572	0.544	-0.051
20	REN169O18	208	4	2.224	0.567	0.550	-0.031
21	REN247M23	208	3	2.413	0.572	0.586	0.023
22	REN54P11	208	3	1.969	0.486	0.492	0.013
23	REN64E19	208	4	1.362	0.274	0.266	-0.032
24	VGL0760	208	5	2.620	0.587	0.618	0.051
25	VGL0910	208	6	2.651	0.639	0.623	-0.027
26	VGL1063	208	6	1.569	0.385	0.363	-0.061
27	VGL1165	208	5	1.774	0.399	0.436	0.085
28	VGL1828	208	5	3.157	0.731	0.683	-0.070
29	VGL2009	208	5	2.152	0.510	0.535	0.048
30	VGL2409	208	8	3.728	0.688	0.732	0.061
31	VGL2918	208	6	3.012	0.683	0.668	-0.022
32	VGL3008	208	7	2.974	0.683	0.664	-0.028
33	VGL3235	208	5	1.736	0.418	0.424	0.013

Standard genetic assessment for 7 STRs in the DLA region

Shikoku

#	Locus	N	Na	Ne	Ho	He	F
1	DLA I-3CCA	208	7	3.062	0.649	0.673	0.036
2	DLA I-4ACA	208	5	2.412	0.529	0.585	0.097
3	DLA I-4BCT	208	4	2.634	0.611	0.620	0.016
4	DLA1131	208	5	2.495	0.572	0.599	0.045
5	5ACA	208	6	2.715	0.596	0.632	0.056
6	5ACT	208	5	2.288	0.548	0.563	0.026
7	5BCA	208	4	1.823	0.438	0.452	0.031

Veterinary Genetics Laboratory

Statistics and Breed-wide Allele Frequency - Shikoku

DLA Class I Haplotype Frequencies

DLA Class II Haplotype Frequencies

Allele Frequencies

Standard genetic assessment based on 33 autosomal STR loci

Standard genetic assessment based on 7 STRs in the DLA region

Standard genetic assessment for individual STR loci

Standard genetic assessment for 7 STRs in the DLA region

Contact the VGL

Statistics and Breed-wide Allele Frequency - Shikoku

DLA Class I Haplotype Frequencies

DLA Class II Haplotype Frequencies

Allele Frequencies

Standard genetic assessment based on 33 autosomal STR loci

Standard genetic assessment based on 7 STRs in the DLA region

Standard genetic assessment for individual STR loci

Standard genetic assessment for 7 STRs in the DLA region

Contact the VGL

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