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Table 3 Maximum match between xenotropic murine leukemia retrovirus (Xmv) and each next generation sequenced MLV region, in 5 mice

From: Endogenous murine leukemia retroviral variation across wild European and inbred strains of house mouse

Reference MLV region C3H LP/J SJL Mmd1 Mmd2
Xmv8 1 88.3 88.8 86.9 88.6 95.1
  2,3 98.7 99.7 97.1 99.5 99.5
  5 98.4 98.7 92.9 97.9 98.7
  6 97.1 99.5 90 90 95.5
Xmv9 1 96.1 94.2 87.1 88 98.4
  2,3 99.2 97.9 97.3 98.7 99.2
  5 98.9 99.2 93.4 98.4 99.2
  6 90.4 89.8 86 86.4 89.9
Xmv10 1 88.6 80.4 84.7 79.6 98.4
  2,3 98.4 99.5 96.8 99.2 99.2
  5 - - - - -
  6 - - - - -
Xmv12 1 99.5 98.5 77.5 88.2 98.5
  2,3 100 99.2 99.5 99.7 100
  5 98.9 99.5 94 98.9 100
  6 100 100 98.3 98.1 99.8
Xmv13 1 96.7 96.9 95.9 96.5 96.7
  2,3 98.1 99.2 96.5 98.9 98.9
  5 99.2 99.5 93.7 98.7 99.5
  6 97.6 99 90.3 90 95.2
Xmv15 1 90.8 91.1 72 81.3 91.3
  2,3 100 99.2 99.5 99.7 100
  5 98.9 99.5 94 98.9 100
  6 98.8 98.8 98.5 98.3 98.5
Xmv17 1 99.5 96.2 82.7 95.5 99.5
  2,3 100 99.2 99.2 99.2 99.7
  5 - - - - -
  6 99.5 99.5 97.9 97.6 99.8
Xmv18 1 99.5 98.2 77.5 88.2 99.5
  2,3 100 99.2 99.5 99.7 100
  5 98.9 99.5 94 98.9 100
  6 99.8 99.8 98.1 97.9 100
Xmv19 1 98.6 99.1 77.3 87.9 98.7
  2,3 100 99.2 99.5 99.7 100
  5 98.9 99.5 94 98.9 100
  6 52.2 46.9 48.5 48.9 49.8
Xmv41 1 96.8 97.5 85.4 95.1 97.3
  2,3 97.9 97.9 95.7 97.1 98.4
  5 96.3 96.6 93.4 93.1 96.8
  6 97.7 98.4 83.6 84.2 97.2
Xmv42 1 99.1 99.1 98.6 98.8 99.5
  2,3 99.2 98.9 99.2 99.5 99.5
  5 - - - - -
  6 99 99.3 99 99 99.3
Xmv43 1 98.3 98.5 86.3 96.3 98.3
  2,3 98.4 98.4 96.3 97.6 98.9
  5 98.7 99.2 93.7 98.7 99.7
  6 98.6 98.4 84.6 84.7 98.4
  1. The use of boldface indicates that across all MLV target regions, the generated sequence read was more similar to the Xmv reference than were other Xmv references. Xmv reference sequences are those of Bamunusinghe et al. [4]. A dash indicates that for a target MLV region, the region is deleted in the reference sequence relative to other MLV sequences