Statistics and Breed-wide Allele Frequency - Shikoku

Updated Sep 16, 2025

DLA Class I Haplotype Frequencies

DLA1 #	STR types	Shikoku (n=209)
1054	382 379 277 184	0.019
1091	381 371 277 181	0.005
1133	378 365 287 172	0.522
1191	388 373 260 186	0.182
1229	381 369 277 188	0.091
1230	386 369 289 184	0.017
1231	389 371 277 186	0.084
1232	380 365 260 186	0.081

DLA Class II Haplotype Frequencies

DLA2 #	STR types	Shikoku (n=209)
2012	345 322 280	0.081
2018	339 324 284	0.182
2056	339 323 286	0.072
2067	343 322 284	0.005
2071	339 322 286	0.017
2077	347 325 286	0.519
2093	347 327 286	0.002
2106	341 325 286	0.019
2122	351 325 286	0.084
2123	339 323 292	0.019

Allele Frequencies

#	Locus Name	Allele	Shikoku (n=218)
1	AHT121	96	0.385
		98	0.099
		100	0.179
		102	0.147
		106	0.154
		108	0.032
		110	0.002
		114	0.002
2	AHT137	131	0.752
		133	0.142
		147	0.064
		151	0.041
3	AHTH130	115	0.803
		117	0.002
		119	0.005
		121	0.170
		125	0.005
		127	0.007
		133	0.009
4	AHTh171-A	219	0.963
		221	0.021
		235	0.002
		237	0.014
5	AHTh260	236	0.356
		246	0.142
		248	0.502
6	AHTk211	89	0.819
		91	0.034
		95	0.147
7	AHTk253	282	0.305
		286	0.183
		288	0.362
		290	0.021
		292	0.108
		294	0.021
8	C22.279	110	0.243
		116	0.424
		118	0.264
		122	0.050
		130	0.018
9	FH2001	132	0.106
		136	0.034
		140	0.282
		144	0.177
		148	0.232
		152	0.014
		154	0.151
		158	0.005
10	FH2054	148	0.005
		152	0.028
		156	0.356
		160	0.112
		164	0.060
		168	0.424
		172	0.016
11	FH2848	230	0.038
		234	0.005
		238	0.858
		240	0.099
12	INRA21	95	0.002
		97	0.472
		99	0.128
		101	0.397
13	INU005	110	0.050
		124	0.656
		126	0.291
		130	0.002
14	INU030	144	0.369
		146	0.376
		152	0.256
15	INU055	210	0.039
		214	0.005
		220	0.323
		222	0.628
		224	0.005
16	LEI004	95	0.390
		97	0.525
		107	0.055
		109	0.030
17	REN105L03	227	0.383
		231	0.136
		233	0.250
		239	0.143
		241	0.088
18	REN162C04	200	0.127
		206	0.859
		210	0.014
19	REN169D01	202	0.055
		212	0.541
		214	0.005
		216	0.399
20	REN169O18	160	0.360
		164	0.564
		168	0.018
		172	0.057
21	REN247M23	268	0.437
		270	0.100
		272	0.463
22	REN54P11	230	0.094
		236	0.249
		238	0.657
23	REN64E19	145	0.085
		147	0.016
		151	0.856
		153	0.044
24	VGL0760	12	0.558
		13	0.102
		14	0.100
		21.2	0.005
		23.2	0.235
25	VGL0910	17.1	0.127
		18.1	0.280
		19.1	0.525
		20.1	0.044
		24.1	0.021
		25.1	0.002
26	VGL1063	13	0.048
		14	0.780
		15	0.149
		16	0.007
		17	0.002
		19	0.011
		20	0.002
27	VGL1165	20	0.734
		22	0.085
		23	0.005
		26	0.014
		28.2	0.163
28	VGL1828	18	0.101
		19	0.502
		20	0.152
		21	0.147
		22	0.097
29	VGL2009	10	0.050
		11	0.170
		13	0.651
		14	0.018
		15	0.110
30	VGL2409	13.3	0.372
		14	0.009
		14.3	0.005
		15	0.234
		15.3	0.025
		16	0.259
		17	0.023
		18	0.073
31	VGL2918	13	0.257
		14	0.482
		15	0.053
		16	0.005
		17.3	0.177
		19.3	0.028
32	VGL3008	11	0.002
		12	0.420
		13	0.055
		15	0.381
		16	0.007
		17	0.057
		18	0.078
33	VGL3235	12	0.074
		15	0.069
		16	0.102
		17	0.012
		18	0.741
		19	0.002

Standard genetic assessment based on 33 autosomal STR loci

Shikoku

		N	Na	Ne	Ho	He	F
	Mean	218	5.000	2.461	0.531	0.533	0.003
	SE		0.271	0.161	0.031	0.030	0.011

Standard genetic assessment based on 7 STRs in the DLA region

Shikoku

		N	Na	Ne	Ho	He	F
	Mean	218	5.143	2.487	0.561	0.588	0.046
	SE		0.374	0.138	0.025	0.025	0.008

Standard genetic assessment for individual STR loci

Shikoku

#	Locus	N	Na	Ne	Ho	He	F
1	AHT121	218	8	4.230	0.817	0.764	-0.069
2	AHT137	218	4	1.689	0.436	0.408	-0.068
3	AHTH130	218	7	1.485	0.303	0.327	0.073
4	AHTh171-A	218	4	1.077	0.073	0.071	-0.028
5	AHTh260	218	3	2.507	0.610	0.601	-0.015
6	AHTk211	218	3	1.443	0.349	0.307	-0.136
7	AHTk253	218	6	3.697	0.748	0.729	-0.025
8	C22.279	218	5	3.209	0.711	0.688	-0.033
9	FH2001	218	8	5.003	0.761	0.800	0.048
10	FH2054	218	7	3.090	0.596	0.676	0.118
11	FH2848	218	4	1.336	0.264	0.252	-0.049
12	INRA21	218	4	2.518	0.633	0.603	-0.050
13	INU005	218	4	1.932	0.472	0.482	0.020
14	INU030	218	3	2.921	0.618	0.658	0.061
15	INU055	218	5	1.996	0.422	0.499	0.154
16	LEI004	218	4	2.316	0.596	0.568	-0.050
17	REN105L03	218	5	3.906	0.743	0.744	0.001
18	REN162C04	218	3	1.325	0.217	0.245	0.116
19	REN169D01	218	4	2.197	0.571	0.545	-0.049
20	REN169O18	218	4	2.214	0.555	0.548	-0.012
21	REN247M23	218	3	2.408	0.572	0.585	0.022
22	REN54P11	218	3	1.992	0.484	0.498	0.028
23	REN64E19	218	4	1.349	0.266	0.259	-0.028
24	VGL0760	218	5	2.583	0.581	0.613	0.051
25	VGL0910	218	6	2.680	0.634	0.627	-0.012
26	VGL1063	218	7	1.580	0.390	0.367	-0.062
27	VGL1165	218	5	1.746	0.390	0.427	0.088
28	VGL1828	218	5	3.156	0.733	0.683	-0.073
29	VGL2009	218	5	2.136	0.514	0.532	0.034
30	VGL2409	218	8	3.751	0.688	0.733	0.062
31	VGL2918	218	6	3.005	0.679	0.667	-0.017
32	VGL3008	218	7	2.998	0.670	0.666	-0.005
33	VGL3235	218	6	1.756	0.426	0.430	0.011

Standard genetic assessment for 7 STRs in the DLA region

Shikoku

#	Locus	N	Na	Ne	Ho	He	F
1	DLA I-3CCA	218	7	3.069	0.647	0.674	0.041
2	DLA I-4ACA	218	5	2.405	0.529	0.584	0.095
3	DLA I-4BCT	218	4	2.643	0.608	0.622	0.021
4	DLA1131	218	5	2.527	0.573	0.604	0.051
5	5ACA	218	6	2.697	0.596	0.629	0.052
6	5ACT	218	5	2.265	0.542	0.558	0.029
7	5BCA	218	4	1.803	0.429	0.445	0.036

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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