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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 MBCDPv2.9





- 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

ARS1.2 MBCDPv2.9 .bam by breedheadline bar 1 - MBCDPv2.9
               2 - ARS1.2 MBCDPv2.9 .bam by mixed groups
                  3 - ARS1.2 MBCDPv2.9 .bam by breed  **14x WGS of MBCDPv2.9 aligned to ARS-UCD1.2 by breed** **To view DNA sequence data for an animal or a group of 6:** Download and install a desktop version ofIGV **(for example, version 2.12.2)**
In IGV, under the "Genomes" tab, choose "Selected Hosted Genome..." and select "Cow (bosTau9)", [OK]
***Copy* a URL link address**(right-click) and paste into**IGV:**  **File**> "Load from URL..."
Note:  left-clicking on a URL under "Public links" will start a 30GB .bam file download (not necessary) Breed
USMARC animal ID
Public links
Read coveragea
GB  >Q20bAngus
19879801
URL
12.7
51.4Angus
19939802
URL
10.3
41.7Angus
19999821
URL
10.7
43.4Angus
19999822
URL
11.0
44.8Angus
19999823
URL
11.4
46.3Angus
19999825
URL
11.0
44.6Angus, 6 genomes URLBeefmaster
19999925
URL
19.4
78.8Beefmaster
19999926
URL
10.5
42.6Beefmaster
19999927
URL
27.0
109.4Beefmaster
19999928
URL
13.2
53.7Beefmaster
19999929
URL
11.0
44.8Beefmaster, 5 genomes URLBrahman
19919842
URL
19.6
79.7Brahman
19999811
URL
19.6
79.4Brahman
19999812
URL
10.0
40.6Brahman
19999813
URL
12.6
51.2Brahman
19999819
URL
12.1
49.2Brahman, 5 genomes URLBrangus
19999909
URL
11.9
48.4Brangus
19999910
URL
11.8
48.1Brangus
19999911
URL
20.9
84.9Brangus
19999912
URL
10.6
42.9Brangus
19999913
URL
10.5
42.7Brangus, 5 genomes URLBraunvieh
19220065
URL
10.6
43.2Braunvieh
19220072
URL
10.9
44.1Braunvieh
19220079
URL
11.3
46.0Braunvieh
19220086
URL
10.6
42.8Braunvieh, 4 genomes URLCharolais
19939808
URL
9.9
40.2Charolais
19969825
URL
10.0
40.8Charolais
19989916
URL
12.3
49.9Charolais
19989919
URL
16.8
68.3Charolais
19999851
URL
10.1
40.8Charolais
19999852
URL
11.7
47.6Charolais, 6 genomes URLChianina
19999914
URL
9.9
40.2Chianina
19999918
URL
10.0
40.4Chianina
19999923
URL
10.7
43.5Chianina
19999924
URL
13.2
53.4Chianina, 4 genomes URLCorriente
19202900
URL
11.3
46.1Corriente
19202901
URL
10.1
41.1Corriente
19202902
URL
12.9
52.4Corriente
19202903
URL
10.5
42.7Corriente, 4 genomes URLGelbvieh
19929826
URL
12.5
50.8Gelbvieh
19989876
URL
10.5
42.5Gelbvieh
19999863
URL
19.2
78.1Gelbvieh
19999864
URL
10.2
41.2Gelbvieh
19999865
URL
12.5
50.7Gelbvieh
19999866
URL
10.2
41.5Gelbvieh, 6 genomesURLHereford
19969811
URL
11.7
47.5Hereford
19969812
URL
14.3
58.2Hereford
19989837
URL
14.3
58.1Hereford
19999828
URL
10.1
41.2Hereford
19999829
URL
10.8
44.0Hereford
20049808
URL
10.2
41.3Hereford, 6 genomesURLLimousin
19989863
URL
10.7
43.4Limousin
19999833
URL
11.9
48.2Limousin
19999834
URL
10.6
43.2Limousin
19999835
URL
11.5
46.8Limousin
19999837
URL
11.2
45.7Limousin
19999838
URL
10.4
42.4Limousin, 6 genomes URLMaine-Anjou
19999900
URL
10.3
41.8Maine-Anjou
19999901
URL
11.2
45.6Maine-Anjou
19999902
URL
9.9
40.3Maine-Anjou
19999903
URL
10.0
40.7Maine-Anjou
19999904
URL
10.4
42.4Maine-Anjou, 5 genomesURLRed Angus
19979802
URL
9.9
40.3Red Angus
19999855
URL
10.2
41.5Red Angus
19999856
URL
10.3
41.9Red Angus
19999857
URL
15.1
61.2Red Angus
19999859
URL
10.0
40.5Red Angus
19999860
URL
10.1
40.9Red Angus, 6 genomesURLSalers
19999874
URL
10.3
41.8Salers
19999875
URL
10.3
41.7Salers
19999876
URL
10.3
41.8Salers
19999880
URL
12.2
49.6Salers
19999882
URL
10.6
43.1Salers, 5 genomesURLSanta Gertrudis
19999905
URL
20.3
82.5Santa Gertrudis
19999906
URL
10.5
42.7Santa Gertrudis
19999907
URL
10.8
43.7Santa Gertrudis
19999908
URL
11.0
44.7Santa Gertrudis, 4 genomesURLShorthorn
19999891
URL
10.4
42.2Shorthorn
19999892
URL
10.1
41.0Shorthorn
19999893
URL
10.1
40.9Shorthorn
19999894
URL
10.1
41.2Shorthorn
19999895
URL
11.1
45.2Shorthorn, 5 genomesURLSimmental
19929810
URL
16.3
66.4Simmental
19999842
URL
11.8
48.1Simmental
19999843
URL
12.6
51.1Simmental
19999846
URL
13.4
54.3Simmental
19999847
URL
12.2
49.5Simmental
19999848
URL
9.9
40.2Simmental, 6 genomesURLTarentaise
19293032
URL
10.1
40.9Tarentaise
19293033
URL
11.8
47.7Tarentaise
19293034
URL
11.9
48.1Tarentaise
19293035
URL
10.8
43.8Tarentaise, 4 genomesURLTexas Longhorn
19999870
URL
10.5
42.8Texas Longhorn
19999871
URL
10.2
41.4Texas Longhorn
19999872
URL
10.0
40.6Texas Longhorn
19999873
URL
10.2
41.4Texas Longhorn, 4 genomesURLTotal
1141.0
4632.6Average
11.9
48.3aCitation:  Heaton MP, Smith TPL, Carnahan JK, Basnayake V, Qiu J, Simpson B, Kalbfleisch TS. Using diverse U.S. beef cattle genomes to identify missense mutations in EPAS1, a gene associated with high-altitude pulmonary hypertension. F1000Research 2016, 5:2003.doi: 10.12688/f1000research.9254.1bTotal 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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