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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 mixed groupsheadline 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 mixed groups of 8** **To view DNA sequence data for an animal or a group of 8:**
Download and install a desktop version of IGV **(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) Breeda
USMARC animal ID
Public links
Read coverageb
GB  >Q20cGroup #1, 8 genomes URL

12.9
419.6Angus
19879801
URL
12.7
51.4Hereford
19969811
URL
11.7
47.5Charolais
19939808
URL
9.9
40.2Simmental
19929810
URL
16.3
66.4Red Angus
19979802
URL
9.9
40.3Limousin
19989863
URL
10.7
43.4Gelbvieh
19929826
URL
12.5
50.8Brahman
19919842
URL
19.6
79.7Group #2, 8 genomes URL

12.3
400.4Angus
19939802
URL
10.3
41.7Hereford
19969812
URL
14.3
58.2Charolais
19969825
URL
10.0
40.8Simmental
19999842
URL
11.8
48.1Red Angus
19999855
URL
10.2
41.5Limousin
19999833
URL
11.9
48.2Gelbvieh
19989876
URL
10.5
42.5Brahman
19999811
URL
19.6
79.4Group #3, 8 genomes URL

12.5
406.3Angus
19999821
URL
10.7
43.4Hereford
19989837
URL
14.3
58.1Charolais
19989916
URL
12.3
49.9Simmental
19999843
URL
12.6
51.1Red Angus
19999856
URL
10.3
41.9Limousin
19999834
URL
10.6
43.2Gelbvieh
19999863
URL
19.2
78.1Brahman
19999812
URL
10.0
40.6Group #4, 8 genomes URL

12.6
409.0Angus
19999822
URL
11.0
44.8Hereford
19999828
URL
10.1
41.2Charolais
19989919
URL
16.8
68.3Simmental
19999846
URL
13.4
54.3Red Angus
19999857
URL
15.1
61.2Limousin
19999835
URL
11.5
46.8Gelbvieh
19999864
URL
10.2
41.2Brahman
19999813
URL
12.6
51.2Group #5, 8 genomes URL

11.3
366.6Angus
19999823
URL
11.4
46.3Hereford
19999829
URL
10.8
44.0Charolais
19999851
URL
10.1
40.8Simmental
19999847
URL
12.2
49.5Red Angus
19999859
URL
10.0
40.5Limousin
19999837
URL
11.2
45.7Gelbvieh
19999865
URL
12.5
50.7Brahman
19999819
URL
12.1
49.2Group #6, 8 genomes URL


10.7
346.9Angus
19999825
URL
11.0
44.6Hereford
20049808
URL
10.2
41.3Charolais
19999852
URL
11.7
47.6Simmental
19999848
URL
9.9
40.2Red Angus
19999860
URL
10.1
40.9Limousin
19999838
URL
10.4
42.4Gelbvieh
19999866
URL
10.2
41.5Brangus
19999909
URL
11.9
48.4Group #7, 8 genomes URL

12.8
416.6Brangus
19999910
URL
11.8
48.1Beefmaster
19999925
URL
19.4
78.8Salers
19999874
URL
10.3
41.8Shorthorn
19999891
URL
10.4
42.2Maine-Anjou
19999902
URL
9.9
40.3Chianina
19999914
URL
9.9
40.2Texas Longhorn
19999870
URL
10.5
42.8Santa Gertrudis
19999905
URL
20.3
82.5Group #8, 8 genomes URL

11.6
377.1Brangus
19999911
URL
20.9
84.9Beefmaster
19999926
URL
10.5
42.6Salers
19999875
URL
10.3
41.7Shorthorn
19999892
URL
10.1
41.0Maine-Anjou
19999904
URL
10.4
42.4Chianina
19999918
URL
10.0
40.4Texas Longhorn
19999871
URL
10.2
41.4Santa Gertrudis
19999906
URL
10.5
42.7Group #9, 8 genomes URL

12.5
404.74Brangus
19999912
URL
10.6
42.9Beefmaster
19999927
URL
27.0
109.4Salers
19999876
URL
10.3
41.8Shorthorn
19999893
URL
10.1
40.9Maine-Anjou
19999900
URL
10.3
41.8Chianina
19999923
URL
10.7
43.5Texas Longhorn
19999872
URL
10.0
40.6Santa Gertrudis
19999907
URL
10.8
43.7Group #10, 8 genomes URL

11.5
372.3Brangus
19999913
URL
10.5
42.7Beefmaster
19999928
URL
13.2
53.7Salers
19999880
URL
12.2
49.6Shorthorn
19999894
URL
10.1
41.2Maine-Anjou
19999901
URL
11.2
45.6Chianina
19999924
URL
13.2
53.4Texas Longhorn
19999873
URL
10.2
41.4Santa Gertrudis
19999908
URL
11.0
44.7Group #11, 8 genomes URL

10.7
348.1Beefmaster
19999929
URL
11.0
44.8Salers
19999882
URL
10.6
43.1Shorthorn
19999895
URL
11.1
45.2Maine-Anjou
19999903
URL
10.0
40.7Braunvieh
19220065
URL
10.6
43.2Braunvieh
19220072
URL
10.9
44.1Corriente
19202900
URL
11.3
46.1Tarentaise
19293032
URL
10.1
40.9Group #12, 8 genomes URL

11.2
364.8Braunvieh
19220079
URL
11.3
46.0Braunvieh
19220086
URL
10.6
42.8Corriente
19202901
URL
10.1
41.1Corriente
19202902
URL
12.9
52.4Corriente
19202903
URL
10.5
42.7Tarentaise
19293033
URL
11.8
47.7Tarentaise
19293034
URL
11.9
48.1Tarentaise
19293035
URL
10.8
43.8Total
1141.0
4632.6Average
11.9
48.3aGroups 1 through 5 contain bulls from seven USMARC CycleVII breeds, plus a Brahman bull.  Groups 6 through 10 contain bulls from eight remaining breeds, generally in order of most registered progeny.  Groups 11 and 12 contain bulls from the remaining breeds.bAn average for the group.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 applicableCitation:  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.9254.1Mention 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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