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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 breedheadline 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 breed** **To view DNA sequence data for an animal or a group of 8:**
Download and install a desktop version ofIGV 2.14.1
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  >Q20cDorper
199911904
URL
12.4
41.2Dorper
200011945
URL
19.6
65.3Dorper
200111910
URL
13.4
44.6Dorper
200111912
URL
14.7
48.9Dorper
200111916
URL
14.0
46.7Dorper
200111917
URL
15.0
49.9Dorper, 6 genomes URLDorper, white
200011259
URL
13.4
44.6Dorper, white
200011900
URL
16.4
54.6Dorper, white
200111923
URL
12.9
43.0Dorper, white
200111924
URL
12.7
42.3Dorper, white, 4 genomes URLAll Dorpers, 10 genomes URLDorset
199912068
URL
12.8
42.8Dorset
199912079
URL
12.2
40.7Dorset
200012903
URL
15.7
52.2Dorset
200112907
URL
16.4
54.6Dorset
200117009
URL
17.3
57.6Dorset
200117016
URL
26.1
86.9Dorset
200117080
URL
15.6
51.9Dorset
200212081
URL
14.9
49.5Dorset
200212908
URL
12.7
42.4Dorset
200212909
URL
13.3
44.4Dorset
200212919
URL
19.0
63.5All Dorsets, 11 genomes URLFinn
199916204
URL
13.4
44.5Finn
200016002
URL
15.2
50.5Finn
200016018
URL
16.6
55.2Finn
200016129
URL
12.3
40.9Finn
200016922
URL
12.4
41.2Finn
200016940
URL
20.5
68.5Finn
200116921
URL
12.4
41.3Finn
200116926
URL
14.5
48.4Finn
200117718
URL
16.3
54.3Finn
200316905
URL
12.5
41.7Finn, 10 genomes URLKatahdin
200008100
URL
19.5
65.1Katahdin
200008764
URL
13.5
44.9Katahdin
200008947
URL
17.0
56.5Katahdin
200108933
URL
19.1
63.5Katahdin
200108934
URL
13.3
44.3Katahdin
200108935
URL
12.8
42.6Katahdin
200108936
URL
12.1
40.4Katahdin
200108938
URL
13.3
44.3Katahdin, 8 genomes URLNavajo-Churro
199950927
URL
15.8
52.8Rambouillet
199735001
URL
12.8
42.7Rambouillet
199935902
URL
12.2
40.5Rambouillet
199935923
URL
18.7
62.3Rambouillet
200035920
URL
19.3
64.2Rambouillet
200035921
URL
12.8
42.8Rambouillet
200035922
URL
16.1
53.7Rambouillet
200035924
URL
13.7
45.6Rambouillet
200135902
URL
22.8
76.1Rambouillet
200235900
URL
12.0
40.0Rambouillet
200235901
URL
17.5
58.2Rambouillet, 10 genomes URLRomanov
199914218
URL
12.1
40.3Romanov
199914942
URL
16.0
53.3Romanov
200014943
URL
12.8
42.6Romanov
200117137
URL
12.9
43.1Romanov
200117140
URL
13.8
46.0Romanov
200117160
URL
14.4
47.9Romanov
200117201
URL
14.5
48.3Romanov
200117419
URL
12.6
41.9Romanov
200117552
URL
29.3
97.7Romanov
200314904
URL
13.3
44.4Romanov, 10 genomes URLSuffolk
199910003
URL
12.0
40.1Suffolk
200117163
URL
16.8
56.1Suffolk
200117463
URL
20.4
68.0Suffolk
200210060
URL
17.3
57.7Suffolk
200210099
URL
14.9
49.5Suffolk
200210903
URL
22.2
74.0Suffolk
200210904
URL
13.9
46.2Suffolk
200210915
URL
13.3
44.3Suffolk
200310906
URL
13.1
43.5Suffolk, 9 genomes URLTexel
199906022
URL
12.7
42.2Texel
200006024
URL
14.5
48.3Texel
200006910
URL
16.9
56.5Texel
200106931
URL
15.3
51.1Texel
200106932
URL
15.0
49.9Texel
200118018
URL
15.3
51.1Texel
200206039
URL
21.5
71.6Texel
200206902
URL
15.0
50.2Texel
200206903
URL
12.4
41.3Texel
200206906
URL
12.3
41.1Texel, 10 genomes URLUSMARC Composite
200103335
URL
12.2
40.6USMARC Composite
200103367
URL
13.9
46.2USMARC Composite
200103459
URL
17.0
56.5USMARC 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
200203286
URL
12.6
41.8USMARC Composites, group A, 9 genomes URLUSMARC Composite
200203310
URL
14.6
48.6USMARC 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 Composites, group B, 8 genomes URLTotal
1450.7
4835.7Average
15.1
50.4aThis group of 96 rams was derived from industry flocks and chosen to be unrelated at the grandparent level. 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@uky.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).Mention 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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