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ARS Home » Plains Area » Clay Center, Nebraska » U.S. Meat Animal Research Center » WGS » MBCDPv2.9 » ARS1.2 MBCDPv2.9 .bam by mixed groups
ARS1.2 MBCDPv2.9 .bam by mixed groups
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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

  Breeda  USMARC animal ID Public links  Read coverageb GB
>Q20c
Group #1, 8 genomes URL    12.9 419.6
  Angus 19879801 URL 12.7 51.4
  Hereford 19969811 URL 11.7 47.5
  Charolais 19939808 URL 9.9 40.2
  Simmental 19929810 URL 16.3 66.4
  Red Angus 19979802 URL 9.9 40.3
  Limousin 19989863 URL 10.7 43.4
  Gelbvieh 19929826 URL 12.5 50.8
  Brahman 19919842 URL 19.6 79.7
           
Group #2, 8 genomes URL    12.3 400.4
  Angus 19939802 URL 10.3 41.7
  Hereford 19969812 URL 14.3 58.2
  Charolais 19969825 URL 10.0 40.8
  Simmental 19999842 URL 11.8 48.1
  Red Angus 19999855 URL 10.2 41.5
  Limousin 19999833 URL 11.9 48.2
  Gelbvieh 19989876 URL 10.5 42.5
  Brahman 19999811 URL 19.6 79.4
           
Group #3, 8 genomes URL    12.5 406.3
  Angus 19999821 URL 10.7 43.4
  Hereford 19989837 URL 14.3 58.1
  Charolais 19989916 URL 12.3 49.9
  Simmental 19999843 URL 12.6 51.1
  Red Angus 19999856 URL 10.3 41.9
  Limousin 19999834 URL 10.6 43.2
  Gelbvieh 19999863 URL 19.2 78.1
  Brahman 19999812 URL 10.0 40.6
           
Group #4, 8 genomes URL    12.6 409.0
  Angus 19999822 URL 11.0 44.8
  Hereford 19999828 URL 10.1 41.2
  Charolais 19989919 URL 16.8 68.3
  Simmental 19999846 URL 13.4 54.3
  Red Angus 19999857 URL 15.1 61.2
  Limousin 19999835 URL 11.5 46.8
  Gelbvieh 19999864 URL 10.2 41.2
  Brahman 19999813 URL 12.6 51.2
           
Group #5, 8 genomes URL    11.3 366.6
  Angus 19999823 URL 11.4 46.3
  Hereford 19999829 URL 10.8 44.0
  Charolais 19999851 URL 10.1 40.8
  Simmental 19999847 URL 12.2 49.5
  Red Angus 19999859 URL 10.0 40.5
  Limousin 19999837 URL 11.2 45.7
  Gelbvieh 19999865 URL 12.5 50.7
  Brahman 19999819 URL 12.1 49.2
           
Group #6, 8 genomes URL     10.7 346.9
  Angus 19999825 URL 11.0 44.6
  Hereford 20049808 URL 10.2 41.3
  Charolais 19999852 URL 11.7 47.6
  Simmental 19999848 URL 9.9 40.2
  Red Angus 19999860 URL 10.1 40.9
  Limousin 19999838 URL 10.4 42.4
  Gelbvieh 19999866 URL 10.2 41.5
  Brangus 19999909 URL 11.9 48.4
           
Group #7, 8 genomes URL    12.8 416.6
  Brangus 19999910 URL 11.8 48.1
  Beefmaster 19999925 URL 19.4 78.8
  Salers 19999874 URL 10.3 41.8
  Shorthorn 19999891 URL 10.4 42.2
  Maine-Anjou 19999902 URL 9.9 40.3
  Chianina 19999914 URL 9.9 40.2
  Texas Longhorn 19999870 URL 10.5 42.8
  Santa Gertrudis 19999905 URL 20.3 82.5
           
Group #8, 8 genomes URL    11.6 377.1
  Brangus 19999911 URL 20.9 84.9
  Beefmaster 19999926 URL 10.5 42.6
  Salers 19999875 URL 10.3 41.7
  Shorthorn 19999892 URL 10.1 41.0
  Maine-Anjou 19999904 URL 10.4 42.4
  Chianina 19999918 URL 10.0 40.4
  Texas Longhorn 19999871 URL 10.2 41.4
  Santa Gertrudis 19999906 URL 10.5 42.7
           
Group #9, 8 genomes URL    12.5 404.74
  Brangus 19999912 URL 10.6 42.9
  Beefmaster 19999927 URL 27.0 109.4
  Salers 19999876 URL 10.3 41.8
  Shorthorn 19999893 URL 10.1 40.9
  Maine-Anjou 19999900 URL 10.3 41.8
  Chianina 19999923 URL 10.7 43.5
  Texas Longhorn 19999872 URL 10.0 40.6
  Santa Gertrudis 19999907 URL 10.8 43.7
           
Group #10, 8 genomes URL    11.5 372.3
  Brangus 19999913 URL 10.5 42.7
  Beefmaster 19999928 URL 13.2 53.7
  Salers 19999880 URL 12.2 49.6
  Shorthorn 19999894 URL 10.1 41.2
  Maine-Anjou 19999901 URL 11.2 45.6
  Chianina 19999924 URL 13.2 53.4
  Texas Longhorn 19999873 URL 10.2 41.4
  Santa Gertrudis 19999908 URL 11.0 44.7
           
Group #11, 8 genomes URL    10.7 348.1
  Beefmaster 19999929 URL 11.0 44.8
  Salers 19999882 URL 10.6 43.1
  Shorthorn 19999895 URL 11.1 45.2
  Maine-Anjou 19999903 URL 10.0 40.7
  Braunvieh 19220065 URL 10.6 43.2
  Braunvieh 19220072 URL 10.9 44.1
  Corriente 19202900 URL 11.3 46.1
  Tarentaise 19293032 URL 10.1 40.9
           
Group #12, 8 genomes URL    11.2 364.8
  Braunvieh 19220079 URL 11.3 46.0
  Braunvieh 19220086 URL 10.6 42.8
  Corriente 19202901 URL 10.1 41.1
  Corriente 19202902 URL 12.9 52.4
  Corriente 19202903 URL 10.5 42.7
  Tarentaise 19293033 URL 11.8 47.7
  Tarentaise 19293034 URL 11.9 48.1
  Tarentaise 19293035 URL 10.8 43.8
      Total 1141.0 4632.6
      Average 11.9 48.3
           
aGroups 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 applicable
Citation:  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.9254.1        
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.
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