Table 3.
Significant CNVR results comparing fat and lean samples using Mann Whitney (two tailed) testing
| Program | CNV ID | Chromosome | Start position | End position | Copy number | Fat | Lean | p(2) | U |
|---|---|---|---|---|---|---|---|---|---|
| cnvPartition |
14.S1 |
14 |
49996213 |
53700421 |
0 |
29 |
18 |
0.05 |
1416 |
| 1 |
0 |
0 |
|||||||
| 2 |
19 |
30 |
|||||||
| 3 |
0 |
0 |
|||||||
| 4+ |
0 |
0 |
|||||||
| cnvPartition |
6.D1 |
6 |
68258924 |
78889296 |
0 |
27 |
16 |
0.05 |
1416 |
| 1 |
0 |
0 |
|||||||
| 2 |
21 |
32 |
|||||||
| 3 |
0 |
0 |
|||||||
| 4+ |
0 |
0 |
|||||||
| cnvPartition |
14.D1 |
14 |
50332490 |
53700421 |
0 |
29 |
40 |
0.05 |
888 |
| 1 |
0 |
0 |
|||||||
| 2 |
19 |
8 |
|||||||
| 3 |
0 |
0 |
|||||||
| 4+ |
0 |
0 |
|||||||
| QuantiSNP |
4.D3 |
4 |
79881 |
2580313 |
0 |
0 |
0 |
0.01 |
768 |
| 1 |
28 |
44 |
|||||||
| 2 |
20 |
4 |
|||||||
| 3 |
0 |
0 |
|||||||
| 4+ |
0 |
0 |
|||||||
| QuantiSNP |
4.D5 |
4 |
74926691 |
77748130 |
0 |
0 |
0 |
0.05 |
888 |
| 1 |
28 |
39 |
|||||||
| 2 |
20 |
9 |
|||||||
| 3 |
0 |
0 |
|||||||
| 4+ |
0 |
0 |
|||||||
| QuantiSNP |
5.D2 |
5 |
33971 |
9428425 |
0 |
0 |
0 |
0.003 |
744 |
| 1 |
23 |
40 |
|||||||
| 2 |
25 |
8 |
|||||||
| 3 |
0 |
0 |
|||||||
| 4+ |
0 |
0 |
|||||||
| QuantiSNP |
14.D1 |
14 |
47658364 |
58439670 |
0 |
0 |
0 |
0.01 |
768 |
| 1 |
12 |
28 |
|||||||
| 2 |
36 |
20 |
|||||||
| 3 |
0 |
0 |
|||||||
| 4+ |
0 |
0 |
|||||||
| QuantiSNP |
15.D2 |
15 |
90602719 |
95659643 |
0 |
0 |
0 |
0.05 |
888 |
| 1 |
29 |
40 |
|||||||
| 2 |
19 |
8 |
|||||||
| 3 |
0 |
0 |
|||||||
| 4+ |
0 |
0 |
|||||||
| cnvPartition |
14.T2 |
14 |
74855162 |
77603365 |
0 |
19 |
36 |
0.003 |
744 |
| 1 |
0 |
0 |
|||||||
| 2 |
29 |
12 |
|||||||
| 3 |
0 |
0 |
|||||||
| 4+ |
0 |
0 |
|||||||
| cnvPartition |
15.T1 |
15 |
19895180 |
21543806 |
0 |
4 |
18 |
0.01 |
816 |
| 1 |
0 |
0 |
|||||||
| 2 |
44 |
30 |
|||||||
| 3 |
0 |
0 |
|||||||
| 4+ |
0 |
0 |
|||||||
| QuantiSNP |
1.T2 |
1 |
18418830 |
18641391 |
0 |
0 |
0 |
<0.0001 |
456 |
| 1 |
17 |
46 |
|||||||
| 2 |
31 |
2 |
|||||||
| 3 |
0 |
0 |
|||||||
| 4+ |
0 |
0 |
|||||||
| QuantiSNP |
4.T5 |
4 |
43206823 |
45758968 |
0 |
0 |
0 |
0.05 |
1416 |
| 1 |
0 |
0 |
|||||||
| 2 |
43 |
32 |
|||||||
| 3 |
5 |
16 |
|||||||
| 4+ | 0 | 0 |
Table shows significant CNVs (determined by Mann Whitney U (two tailed) tests, present in more than 5 animals for both QuantiSNP and cnvPartition. The chromosome and start and end of each of the CNVRs, is given. The estimated copy number of the sequence and the number of animals in which each was observed is also provided. Each CNV was assigned a ‘CNV ID.’ For example ‘1.S2’ denotes that the CNV is on chromosome 1, it is from SLLW breed and it has been assigned the number ‘2’. Duroc and Titan CNVs were assigned the letter D and T respectively.