Genomic population structure and prevalence of copy number variations in South African Nguni cattle

BMC Genomics

Table 1 Haplotype block chromosomal distribution and characteristics

CHR	CHRLN	SNP	HPB	MinL	MaxL	AvL	HPBLn	PCN
1	161428367	2637	43	2809	199730	10561715	4330346	2.68
2	141965563	1691	33	1641	190889	77656.88	2485053	1.75
3	126844711	1716	38	108	192734	84265.08	3117846	2.46
4	123809850	1358	22	3406	198460	99861.67	2097117	1.69
5	125249322	1349	21	148	191441	80559.43	1691769	1.35
6	122519025	1438	21	2660	197610	82146.24	1725092	1.41
7	113029157	1328	31	1969	199428	88447.73	2653463	2.35
8	116846264	1306	30	84	197993	95895.72	2781006	2.38
9	108503706	1253	23	449	173897	61200.77	1346440	1.24
10	105982576	1059	22	10923	194738	123553.18	2718192	2.56
11	109987751	1071	15	9816	191201	96847.67	1452730	1.32
12	85119472	2140	25	620	194123	75741.70	1817826	2.14
13	84213851	1220	16	382	196561	57314.19	917043	1.09
14	81216349	1121	25	108	160297	48024.25	1152607	1.42
15	84472747	1015	10	6788	176328	73205.13	585651	0.69
16	77710258	852	22	178	188386	74494.59	1638903	2.11
17	76280064	987	12	2032	194454	65094.33	781144	1.02
18	65811054	769	13	5603	193175	63212.5	758563	1.15
19	64845320	864	14	1014	197085	82993.29	1161920	1.79
20	75686341	756	12	1527	195895	72733.91	800085	1.06
21	69078422	755	10	12797	173099	86163.67	775483	1.12
22	61598339	819	9	9271	176207	49994	399961	0.65
23	52334015	1980	11	2414	142956	48732.73	536071	1.02
24	64508398	1950	12	95	195261	65562.08	786757	1.22
25	44081797	1650	11	1343	180067	56038.46	616434	1.40
26	51826547	2017	11	281	187010	85746.2	857473	1.65
27	48460478	1784	8	151	191285	70888.75	567118	1.17
28	45964680	1890	10	675	140455	41588.63	332719	0.72
29	51812796	1538	11	3683	172838	64737.73	712126	1.37
Tot		40313	541	84	199730	79686.58	41596938

Chromosome number (CHR), chromosome length (CHRLN), number of SNPs (SNP) and HPBs (HPB), minimum length (MinL), maximum length (MaxL), average length (AvL) and total length (HPBLN) of HPBs and percentage of chromosome covered by HPBs (PCN)

ISSN: 1471-2164