Table 1 Known HXB2 N-linked glycosylation site conservation by different alignment methods in HIV-1 protein B sequences (Bold value denotes equally maximum score and a when unique for our method)

From: NGlyAlign: an automated library building tool to align highly divergent HIV envelope sequences

HXB2 position Location NGlyAlign + Dialign HIVAlign ClustalW Muscle Clustal Omega T-coffee
88 NVT C1 100 100 98.72 100 100 100
136 NDT V1 44.23 23.08 15.38 52.56 23.08 23.08
141 NSS V1 55.13a 17.95 26.28 7.05 6.41 20.51
156 NCS V1 97.44 97.44 97.44 97.44 97.44 97.44
160 NIS V2 89.1 89.1 89.1 89.1 89.1 89.1
186 NDT V2 28.85a 15.38 12.82 15.38 13.46 14.74
197 NTS V2 98.08 98.08 98.08 98.08 98.08 98.08
230 NKT C2 26.28 26.28 26.28 26.28 26.28 26.28
234 NGT C2 74.36 74.36 74.36 74.36 74.36 74.36
241 NVS C2 97.44 97.44 97.44 97.44 97.44 97.44
262 NGS C2 100 100 100 100 100 100
276 NFT C2 98.08 98.08 98.08 98.08 98.08 98.08
289 NTS C2 69.23 69.23 69.23 69.23 69.23 69.23
295 NCT C2 78.85 78.85 78.85 78.85 78.85 78.85
301 NNT V3 92.95 92.95 92.95 92.95 92.95 92.95
332 NIS C3 87.18 87.18 87.18 87.18 87.18 87.18
339 NNT C3 77.56 77.56 77.56 77.56 77.56 78.21
356 NKT C3 83.33 83.33 12.82 10.9 45.51 87.18
386 NST V4 82.05 82.05 82.05 82.05 82.05 82.05
392 NST V4 87.82 87.82 87.82 87.82 87.82 87.82
397 NST V4 89.10a 8.97 39.1 37.18 8.97 8.97
406 NNT V4 32.05 20.51 17.31 50 8.97 16.03
448 NIT C4 92.31 92.31 92.31 92.31 92.31 92.31
463 NES V5 69.87a 46.79 32.05 26.28 39.74 42.95
611 NAS gp41 98.08 98.08 98.08 98.08 98.08 98.08
616 NKS gp41 89.74 89.74 89.74 89.74 86.54 89.74
624 NHT gp41 95.51 95.51 95.51 94.87 0.64 0.64
637 NYT gp41 98.72 98.72 98.72 98.72 98.08 98.72
674 NIT gp41 13.46 13.46 13.46 13.46 13.46 13.46
750 NGT gp41 1.28 1.28 1.28 1.28 1.28 1.28
816 NAT gp41 69.87 69.87 69.87 69.87 69.87 69.87
Combined score over N Sites   2317.95a 2131.4 2069.87 2114.1 1962.82 2034.62