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Table 2 Nucleotide and amino acid identities of IBV Moroccan isolates and reference strains

From: Phylogenetic analysis of avian infectious bronchitis virus S1 glycoprotein regions reveals emergence of a new genotype in Moroccan broiler chicken flocks

  S1 gene nucleotide identity (%)
Strains 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19
1. IBV/Morocco/38 100 93.5 91.6 74.3 74 73.8 73.2 72.6 65.6 61.8 62 56.1 61.5 53 46.3 62 31.5 29.7 31.5
2. IBV/Morocco/30 90.9 100 94.8 77.7 77.7 77.4 76.7 76.2 68.7 65.2 65.4 58.5 65.1 49.5 48.2 65.4 31.46 29.7 33
3. IBV/Morocco/01 89.4 90.9 100 78.2 77.8 77.8 76.8 76.3 69.9 65 65 59.1 65.7 48.8 49.3 65 33.7 31.8 33.7
4. Spain/05/866 73.6 75.8 75.6 100 98.3 98.3 93.7 92.9 77.5 71.3 71.6 63.9 71.6 41.6 52.9 71.6 75.2 35.5 37
5. Spain/04/22-1 73.2 76.8 74.6 96.5 100 97.7 93.9 93.5 78.1 70.8 71 63.7 71.4 41.8 52.7 71 75.2 35.5 37
6. Spain/05/221 72.7 76.3 75.1 95.4 94.8 100 93.1 93.1 78.2 71.4 71.6 64.3 71.6 42.1 53.1 71.5 75 35.7 37
7. Italy-02 71.3 74.8 73.6 89.7 91.4 89.7 100 97.1 74.6 71 71.2 65.1 69.8 4.3 52.3 71.2 73.3 35.3 36.4
8. It/497/02-1 69.4 73.3 71.6 90.2 92 91.4 93.1 100 75.6 70.4 70.6 64.2 70.4 41.8 52.1 70.6 74.1 34.9 35.7
9. 4/91 63.6 65.3 66.5 76.1 76.1 76.7 72.2 72.2 100 74.14 74.3 60.6 73.4 38.4 48.9 74.3 71.5 34.9 35.9
10. H120 58.8 61.8 61.4 68.4 67.2 66.1 66.1 64.9 65.3 100 99.4 61.1 72.2 35.9 45.9 99.4 69.2 33.1 35
11. Ma5 59.3 62.3 61.9 68.9 67.8 66.7 66.7 65.5 65.3 99.4 100 61.3 72.4 36.1 46.1 100 69.3 33.1 35
12. D274 55.1 57.3 58.4 66.5 65.9 67 67.6 65.9 61.9 58.9 58.9 100 58.8 33.8 42.4 61.3 61.1 27.9 29.5
13. Qx 60 62 62.6 68.9 67.8 66.7 67.8 66.1 69.3 72 72.6 60.2 100 37.3 47.9 72.4 70.2 32.1 32.8
14. TN556/07 52.7 48.5 48.1 42.1 42.5 42.9 40.8 42.1 41 34.4 34.9 36.1 37.4 100 58.7 36.1 38.7 22 22.2
15. TN296/07 37.3 38.6 39.5 45.9 44.8 44.8 44.5 44.3 43.7 38.5 39 38.2 40.7 41.6 100 46.1 49.2 28.2 28.5
16. NGA/A116E/2006-1 59.3 57,9 60,41 68.9 67.8 66.7 66.7 65.5 65.3 99.4 99.4 58.9 72.6 34.9 39 100 69.3 33.1 35
17. Ark/C6d 61.3 63.8 61.9 73.7 73.7 73.2 72.1 72.1 67.1 63.9 64.4 62.5 68.9 39.4 42.4 64.4 100 34.5 36.4
18. Egypt/SCU-14/2013-1 12.9 14.5 13.6 16.9 17.5 16.9 16.4 16.4 14.3 16.5 17 12.6 17.1 10.4 11.6 17 16.1 100 81.8
19. Egypt/Beni-Suef/01 13.8 14 14.6 18 18.6 18 17.5 17.5 15.4 17 17.6 14 18.8 10.7 11.4 17.6 17.2 81.3 100
  S1 protein amino acid identity (%)