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Table 2 Sequence identity matrix of the capsid protein (ORF2) and the nucleotide alignment of the whole genome of the PCV2 isolates found in Malaysia

From: Genetic characterization of Porcine Circovirus 2 found in Malaysia

Sequences 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22
(1) AY484407 PCV2b   98.4 98.6 98.4 98.6 99.2 99.3 98.4 99.1 99 98.3 98.4 98.6 98.3 99.5 99.5 99.2 99.2 99.6 99.7 99.5 76.2
(2) JF690912 Mal003/11 98.7   99.6 99.7 99.5 97.7 98 97.5 98.9 98.9 99.5 99.7 99.6 99.4 98 98.1 98 97.9 98.3 98.2 98.1 76.5
(3) JF690913 Mal004/11 98.7 98.7   99.6 99.9 97.9 98.3 97.9 99.3 99.3 99.6 99.7 99.7 99.4 98.4 98.5 98.3 98.3 98.6 98.4 98.5 76.4
(4) JF690914 Mal005/11 96.5 96.1 96.5   99.7 97.7 98 97.6 99.1 99 99.6 99.7 99.6 99.5 98.1 98.3 98 98 98.4 98.2 98.3 76.3
(5) JF690915 Mal006/11 97.4 96.9 96.9 94.8   97.9 98.3 97.9 99.4 99.2 99.5 99.6 99.7 99.4 98.4 98.5 98.3 98.3 98.6 98.4 98.5 76.3
(6) JF690916 Mal007/11 96.5 96.1 96.1 94 99.1   98.8 97.9 98.4 98.4 97.6 97.7 98 97.6 98.7 98.7 98.4 98.4 98.8 98.9 98.7 75.5
(7) JF690917 Mal008/11 96.1 95.7 95.7 93.5 98.7 99.5   98.1 98.8 98.7 98 98 98.3 97.9 98.9 98.9 98.5 98.6 99 99 98.8 76
(8) JF690918 Mal009/11 96.5 96.1 96.1 94 98.7 99.5 99.1   98.4 98.3 97.5 97.6 97.8 97.5 98.3 98.4 97.7 98.1 98.5 98.3 98.2 75.4
(9) JF690919 Mal010/11 95.7 95.2 95.2 93.1 97.8 98.7 99.1 99.1   99.8 98.9 99 99.2 98.9 98.9 99 98.5 98.8 99.1 98.9 99 76.4
(10) JF690920 Mal011/11 97.4 96.9 96.9 94.8 99.5 98.7 98.2 99.1 98.2   99.1 99.1 99.3 99 98.8 98.9 98.5 98.7 99 98.9 98.9 76.5
(11) JF690921 Mal012/11 96.1 95.7 95.7 93.5 98.2 99.1 99.5 99.5 99.5 98.7   99.5 99.5 99.6 98 98.1 98 97.9 98.3 98.1 98.1 76.4
(12) JF690922 Mal013/11 96.1 95.7 95.7 93.5 98.2 99.1 99.5 99.5 99.5 98.7 100   99.7 99.6 98.1 98.3 98 98 98.4 98.2 98.3 76.4
(13) JF690923 Mal001/11 96.5 96.1 96.1 94 98.7 99.5 99.1 100 99.1 99.1 99.5 99.5   99.6 98.3 98.4 98.3 98.2 98.5 98.5 98.4 76.4
(14) JF690911 Mal002/11 96.1 95.7 95.7 93.5 98.2 99.1 99.5 99.5 99.5 98.7 100 100 99.5   98 98.1 97.9 97.9 98.3 98.1 98.1 76.3
(15) AY682992 PCV2b 100 98.7 98.7 96.5 97.4 96.5 96.1 96.5 95.7 97.4 96.1 96.1 96.5 96.1   99.5 98.8 99.2 99.6 99.3 99.3 76
(16) EU418627 PCV2b 100 98.7 98.7 96.5 97.4 96.5 96.1 96.5 95.7 97.4 96.1 96.1 96.5 96.1 100   98.8 99.3 99.7 99.3 99.3 76.1
(17) FJ905469 PCV2b 98.7 97.4 97.4 95.2 96.9 97 96.5 97 96.1 96.9 96.5 96.5 97 96.5 98.7 98.7   98.5 98.9 99 99 76.1
(18) FJ905470 PCV2b 99.1 97.8 97.8 95.7 96.9 96.1 95.7 96.1 95.2 96.9 95.7 95.7 96.1 95.7 99.1 99.1 97.8   99.4 99.2 99 75.9
(19) GU247989 PCV2b 99.5 98.2 98.2 96.1 96.9 96.1 95.7 96.1 95.2 96.9 95.7 95.7 96.1 95.7 99.5 99.5 98.2 98.7   99.4 99.4 76.1
(20) HQ831530 PCV2b 100 98.7 98.7 96.5 97.4 96.5 96.1 96.5 95.7 97.4 96.1 96.1 96.4 96.1 100 100 98.7 99.1 99.5   99.3 76.2
(21) HQ831532 PCV2b 99.5 98.5 98.2 96.1 97.8 97 96.5 97 96.1 97.8 96.5 96.5 97.1 96.5 99.5 99.5 99.1 98.7 99.1 99.5   76.4
(22) U49186 PCV1 67.6 66.9 67.7 66.9 67.3 66.8 66.8 65.1 68 68.5 67.3 67.3 67.7 67.3 67.6 67.6 67.2 67.2 67.2 67.6 67.6  
  1. PCV2 isolates found in Malaysia were compared with other PCV2b isolates and PCV1. Sequence identity scores for the other PCVs are not shown. The upper right portion is the sequence identity scores of the nucleotide alignment of the whole genome of PCV's; the lower portion is the amino acid sequence identity scores for the capsid protein (ORF2) of PCV2b. The highest nucleotide similarity scores for the Malaysian isolates are shown in bold.