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 U.S. Meat Animal Research Center: Clay Center, NE
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ARS Home Plains Area Clay Center, Nebraska U.S. Meat Animal Research Center WGS MSDPv2.4





- Main page
- Cattle reference (v2.9)
- Cattle extended (v1.0)
- Sheep reference (v2.4)
- Sheep extended (v1.0)
- Sheep international (v75)
- Sheep Tissues Bank (v30)
- Species Mapped to Cattle
- Species Mapped to Sheep
- Cell Lines

Oar3.1 MSDPv2.4 .bam by mixed groupsheadline bar 1 - MSDPv2.4
               2 - Oar3.1 MSDPv2.4 .bam by mixed groups
                  3 - Oar3.1 MSDPv2.4 .bam by breed   **15x WGS of MSDPv2.4 by mixed groups of 8** **To view DNA sequence data for an animal or a group of 8:**
Download and install a desktop version ofIGV2.14.1
**Load a custom, gene-searchable, 2012 Oarv3.1 reference assembly** .json file
Genomes tab> "Load Genome from URL..." then paste in .json file URL (from above)
Note, this may be slow the first time the genome is loaded, then faster thereafter.
***Copy* an animal or group URL link address from**below (right-click)
File tab> "Load from URL..." > then paste in URL (from below)  Breed
USMARC animal ID
Public links
Read coverageb
GB  >Q20cGroup #1, 8 genomes URL

13.5
358.85Dorper
199911904
URL
12.4
41.2Dorset
199912068
URL
12.8
42.8Finn
199916204
URL
13.4
44.5Katahdin
200008100
URL
19.5
65.1Rambouillet
199735001
URL
12.8
42.7Romanov
199914218
URL
12.1
40.3Suffolk
199910003
URL
12.0
40.1Texel
199906022
URL
12.7
42.2Group #2, 8 genomes URL

15.0
399.6Dorper
200011945
URL
19.6
65.3Dorset
199912079
URL
12.2
40.7Finn
200016002
URL
15.2
50.5Katahdin
200008764
URL
13.5
44.9Rambouillet
199935902
URL
12.2
40.5Romanov
199914942
URL
16.0
53.3Suffolk
200117163
URL
16.8
56.1Texel
200006024
URL
14.5
48.3Group #3, 8 genomes URL

16.4
437.8Dorper
200111910
URL
13.4
44.6Dorset
200012903
URL
15.7
52.2Finn
200016018
URL
16.6
55.2Katahdin
200008947
URL
17.0
56.5Rambouillet
199935923
URL
18.7
62.3Romanov
200014943
URL
12.8
42.6Suffolk
200117463
URL
20.4
68.0Texel
200006910
URL
16.9
56.5Group #4, 8 genomes URL

15.9
424.0Dorper
200111912
URL
14.7
48.9Dorset
200112907
URL
16.4
54.6Finn
200016129
URL
12.3
40.9Katahdin
200108933
URL
19.1
63.5Rambouillet
200035920
URL
19.3
64.2Romanov
200117137
URL
12.9
43.1Suffolk
200210060
URL
17.3
57.7Texel
200106931
URL
15.3
51.1Group #5, 8 genomes URL

14.2
378.1Dorper
200111916
URL
14.0
46.7Dorset
200117009
URL
17.3
57.6Finn
200016922
URL
12.4
41.2Katahdin
200108934
URL
13.3
44.3Rambouillet
200035921
URL
12.8
42.8Romanov
200117140
URL
13.8
46.0Suffolk
200210099
URL
14.9
49.5Texel
200106932
URL
15.0
49.9Group #6, 8 genomes URL

17.8
474.6Dorper
200111917
URL
15.0
49.9Dorset
200117016
URL
26.1
86.9Finn
200016940
URL
20.5
68.5Katahdin
200108935
URL
12.8
42.6Rambouillet
200035922
URL
16.1
53.7Romanov
200117160
URL
14.4
47.9Suffolk
200210903
URL
22.2
74.0Texel
200118018
URL
15.3
51.1Group #7, 8 genomes URL

14.6
389.9Dorper, white
200011259
URL
13.4
44.6Dorset
200117080
URL
15.6
51.9Finn
200116921
URL
12.4
41.3Katahdin
200108936
URL
12.1
40.4Rambouillet
200035924
URL
13.7
45.6Romanov
200117201
URL
14.5
48.3Suffolk
200210904
URL
13.9
46.2Texel
200206039
URL
21.5
71.6Group #8, 8 genomes URL

15.3
409.2Dorper, white
200011900
URL
16.4
54.6Dorset
200212081
URL
14.9
49.5Finn
200116926
URL
14.5
48.4Katahdin
200108938
URL
13.3
44.3Rambouillet
200135902
URL
22.8
76.1Romanov
200117419
URL
12.6
41.9Suffolk
200210915
URL
13.3
44.3Texel
200206902
URL
15.0
50.2Group #9, 8 genomes URL

15.6
415.0Dorper, white
200111923
URL
12.9
43.0Dorset
200212908
URL
12.7
42.4Finn
200117718
URL
16.3
54.3Navajo-Churro
199950927
URL
15.8
52.8Rambouillet
200235900
URL
12.0
40.0Romanov
200117552
URL
29.3
97.7Suffolk
200310906
URL
13.1
43.5Texel
200206903
URL
12.4
41.3Group #10, 8 genomes URL

14.0
374.3Dorper, white
200111924
URL
12.7
42.3Dorset
200212909
URL
13.3
44.4Finn
200316905
URL
12.5
41.7Rambouillet
200235901
URL
17.5
58.2Romanov
200314904
URL
13.3
44.4USMARC Composite
200103335
URL
12.2
40.6USMARC Composite
200103367
URL
13.9
46.2USMARC Composite
200103459
URL
17.0
56.5Group #11, 8 genomes URL

14.5
385.5Dorset
200212919
URL
19.0
63.5Texel
200206906
URL
12.3
41.1USMARC Composite
200203048
URL
16.4
54.7USMARC Composite
200203128
URL
12.4
41.2USMARC Composite
200203170
URL
13.0
43.5USMARC Composite
200203179
URL
15.0
49.9USMARC Composite
200203278
URL
12.9
43.0USMARC Composite
200203310
URL
14.6
48.6Group #12, 8 genomes URL

14.6
388.8USMARC Composite
200303158
URL
14.9
49.6USMARC Composite
200303163
URL
15.5
51.6USMARC Composite
200303183
URL
13.4
44.8USMARC Composite
200303220
URL
14.7
49.0USMARC Composite
200303274
URL
13.5
44.9USMARC Composite
200303289
URL
14.5
48.4USMARC Composite
200303326
URL
17.6
58.6USMARC Composite
200203286
URL
12.6
41.8Total
1450.7
4835.7Average
15.1
50.4aGroups 1 through 12 contain purebred and USMARC Composite rams sampled ca 2008.  The USMARC composite population (MARCIII) consists of: 1/2 Columbia, 1/4 Hampshire, and 1/4 Suffolk.Heaton et al. BMC Vet. Res. 2010bThis estimate is based results in cattle where the genome coverage for an animal was ~(0.3)(Q20 GB) produced from a NextSeq500 machine.Heaton et al. F1000Research 2016A poster describing the results was presented at the International meeting for Plant and Animal Genomes, San Diego CA, January 2017:Using an Online Genome Resource to Identify Myostatin Variation in U.S. SheepFor questions or comments about access to the data, please contact corresponding authors Mike Heaton or Ted Kalbfleisch at mike.heaton@ars.usda.gov or ted.kalbfleisch@louisville.edu, respectively.cTotal gigabases of genomic sequence with a quality score greater than or equal to 20.   Tru-Seq paired-end libraries were sequenced with NextSeq500 high-output kits (300 cycles, Illumina Inc. San Diego CA).dNot applicableMention of trade names or commercial products in this public information release is solely for the purpose of providing specific information and does not imply recommendation or endorsement by the USDA. << Previous

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