Statistics and Breed-wide Allele Frequency - Havana Silk

Updated Dec 22, 2024

DLA Class I Haplotype Frequencies

DLA1 #	STR types	Havana Silk (n=56)
1003	387 375 277 186	0.071
1006	387 375 293 180	0.027
1016	382 371 277 178	0.089
1018	375 373 287 186	0.009
1029	380 365 281 182	0.009
1030	380 373 293 178	0.036
1040	380 371 277 186	0.018
1054	382 379 277 184	0.063
1068	380 373 287 181	0.241
1092	376 379 277 181	0.196
1093	386 379 277 180	0.027
1115	386 371 277 182	0.054
1116	380 365 289 186	0.054
1117	376 373 277 180	0.071
1140	376 379 301 180	0.009
1262	382 377 289 180	0.027

DLA Class II Haplotype Frequencies

DLA2 #	STR types	Havana Silk (n=56)
2001	343 324 284	0.071
2003	343 324 282	0.259
2005	339 322 280	0.027
2007	351 327 280	0.027
2016	339 323 284	0.009
2022	339 327 282	0.063
2023	341 323 282	0.036
2032	339 323 280	0.027
2053	343 324 280	0.259
2066	339 324 280	0.089
2070	347 324 282	0.054
2074	341 324 284	0.071
2075	341 327 282	0.009

Allele Frequencies

#	Locus Name	Allele	Havana Silk (n=56)
1	AHT121	92	0.089
		94	0.027
		96	0.036
		100	0.170
		102	0.089
		104	0.232
		106	0.071
		108	0.286
2	AHT137	131	0.232
		133	0.018
		137	0.152
		141	0.393
		143	0.027
		147	0.152
		149	0.027
3	AHTH130	119	0.268
		121	0.161
		125	0.268
		127	0.214
		129	0.063
		131	0.027
4	AHTh171-A	219	0.170
		225	0.107
		227	0.080
		229	0.357
		231	0.250
		233	0.027
		235	0.009
5	AHTh260	238	0.018
		244	0.107
		246	0.232
		248	0.420
		250	0.071
		254	0.152
6	AHTk211	87	0.393
		89	0.250
		91	0.009
		95	0.348
7	AHTk253	286	0.080
		288	0.545
		290	0.054
		292	0.321
8	C22.279	116	0.080
		118	0.321
		120	0.009
		124	0.268
		126	0.107
		130	0.214
9	FH2001	124	0.027
		132	0.732
		144	0.205
		148	0.009
		152	0.027
10	FH2054	152	0.045
		156	0.384
		160	0.018
		164	0.134
		168	0.259
		172	0.036
		176	0.125
11	FH2848	232	0.214
		236	0.348
		238	0.054
		240	0.116
		242	0.268
12	INRA21	91	0.063
		95	0.286
		97	0.446
		99	0.027
		101	0.152
		103	0.027
13	INU005	124	0.696
		126	0.143
		128	0.018
		132	0.027
		138	0.116
14	INU030	144	0.616
		148	0.009
		150	0.071
		152	0.304
15	INU055	210	0.348
		212	0.304
		214	0.188
		216	0.027
		218	0.134
16	LEI004	85	0.920
		95	0.036
		97	0.009
		107	0.036
17	REN105L03	227	0.009
		229	0.027
		231	0.321
		233	0.143
		237	0.152
		241	0.348
18	REN162C04	202	0.071
		204	0.080
		206	0.464
		208	0.304
		210	0.080
19	REN169D01	202	0.071
		210	0.348
		212	0.027
		214	0.089
		216	0.286
		218	0.036
		220	0.143
20	REN169O18	160	0.071
		162	0.616
		164	0.143
		166	0.063
		168	0.045
		170	0.063
21	REN247M23	268	0.232
		270	0.259
		272	0.286
		274	0.009
		276	0.188
		278	0.027
22	REN54P11	222	0.152
		226	0.188
		228	0.089
		232	0.196
		236	0.214
		238	0.161
23	REN64E19	139	0.063
		143	0.036
		145	0.036
		147	0.259
		149	0.196
		153	0.366
		155	0.045
24	VGL0760	12	0.036
		13	0.063
		14	0.063
		18.2	0.098
		20.2	0.018
		21.2	0.089
		22.2	0.330
		23.2	0.214
		24.2	0.089
25	VGL0910	16.1	0.107
		17.1	0.366
		18	0.009
		18.1	0.063
		19.1	0.143
		20.1	0.018
		21.1	0.170
		22	0.054
		22.1	0.054
		23.1	0.018
26	VGL1063	8	0.143
		12	0.063
		13	0.027
		14	0.098
		15	0.063
		16	0.009
		17	0.116
		18	0.045
		19	0.054
		20	0.223
		21	0.071
		22	0.089
27	VGL1165	18	0.161
		19	0.161
		21	0.107
		22	0.009
		26	0.313
		27	0.089
		28	0.098
		29	0.045
		31	0.009
		32	0.009
28	VGL1828	15	0.080
		16	0.446
		19	0.045
		20	0.116
		21	0.295
		23	0.018
29	VGL2009	11	0.295
		12	0.045
		13	0.196
		14	0.277
		15	0.170
		16	0.018
30	VGL2409	14	0.018
		16	0.313
		17	0.366
		18	0.259
		20	0.045
31	VGL2918	12	0.063
		13	0.607
		14	0.125
		15	0.009
		16	0.071
		18.3	0.027
		19.3	0.018
		22.3	0.080
32	VGL3008	13	0.089
		15	0.018
		16	0.009
		17	0.018
		18	0.196
		19	0.214
		20	0.027
		21	0.402
		22	0.027
33	VGL3235	13	0.554
		14	0.107
		15	0.107
		16	0.009
		17	0.009
		18	0.125
		19	0.089

Standard genetic assessment based on 33 autosomal STR loci

Havana Silk

		N	Na	Ne	Ho	He	F
	Mean	56	6.485	3.772	0.731	0.693	-0.051
	SE		0.324	0.236	0.027	0.024	0.013

Standard genetic assessment based on 7 STRs in the DLA region

Havana Silk

		N	Na	Ne	Ho	He	F
	Mean	56	5.143	2.947	0.676	0.622	-0.077
	SE		0.425	0.334	0.066	0.051	0.042

Standard genetic assessment for individual STR loci

Havana Silk

#	Locus	N	Na	Ne	Ho	He	F
1	AHT121	56	8	5.338	0.786	0.813	0.033
2	AHT137	56	7	3.905	0.893	0.744	-0.200
3	AHTH130	56	6	4.548	0.768	0.780	0.016
4	AHTh171-A	56	7	4.209	0.732	0.762	0.040
5	AHTh260	56	6	3.705	0.768	0.730	-0.052
6	AHTk211	56	4	2.957	0.768	0.662	-0.160
7	AHTk253	56	4	2.443	0.536	0.591	0.093
8	C22.279	56	6	4.184	0.839	0.761	-0.103
9	FH2001	56	5	1.725	0.429	0.420	-0.020
10	FH2054	56	7	3.975	0.911	0.748	-0.217
11	FH2848	56	5	3.918	0.804	0.745	-0.079
12	INRA21	56	6	3.233	0.714	0.691	-0.034
13	INU005	56	5	1.923	0.518	0.480	-0.079
14	INU030	56	4	2.097	0.571	0.523	-0.092
15	INU055	56	5	3.742	0.804	0.733	-0.097
16	LEI004	56	4	1.179	0.143	0.152	0.058
17	REN105L03	56	6	3.720	0.821	0.731	-0.123
18	REN162C04	56	5	3.070	0.679	0.674	-0.006
19	REN169D01	56	7	4.195	0.821	0.762	-0.079
20	REN169O18	56	6	2.410	0.554	0.585	0.054
21	REN247M23	56	6	4.193	0.839	0.761	-0.102
22	REN54P11	56	6	5.666	0.821	0.824	0.003
23	REN64E19	56	7	4.031	0.804	0.752	-0.069
24	VGL0760	56	9	5.262	0.857	0.810	-0.058
25	VGL0910	56	10	4.877	0.804	0.795	-0.011
26	VGL1063	56	12	8.340	0.929	0.880	-0.055
27	VGL1165	56	10	5.536	0.893	0.819	-0.090
28	VGL1828	56	6	3.243	0.768	0.692	-0.110
29	VGL2009	56	6	4.290	0.804	0.767	-0.048
30	VGL2409	56	5	3.322	0.732	0.699	-0.047
31	VGL2918	56	8	2.495	0.679	0.599	-0.133
32	VGL3008	56	9	3.905	0.661	0.744	0.112
33	VGL3235	56	7	2.832	0.661	0.647	-0.021

Standard genetic assessment for 7 STRs in the DLA region

Havana Silk

#	Locus	N	Na	Ne	Ho	He	F
1	DLA I-3CCA	56	6	3.965	0.893	0.748	-0.194
2	DLA I-4ACA	56	6	3.930	0.839	0.746	-0.126
3	DLA I-4BCT	56	6	2.379	0.661	0.580	-0.140
4	DLA1131	56	6	3.792	0.696	0.736	0.054
5	5ACA	56	5	2.438	0.571	0.590	0.031
6	5ACT	56	4	1.512	0.321	0.339	0.051
7	5BCA	56	3	2.612	0.750	0.617	-0.215

Veterinary Genetics Laboratory

Statistics and Breed-wide Allele Frequency - Havana Silk

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 - Havana Silk

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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