Select the most conserved/variable regions across the HIV genome


The scatter plots describe a sliding window analysis (30 nt windows with 1 nt of overlap) of the following measures of sequence conservation for each multiple sequence alignment used the database:
-PIS: percentage of identical sites
-PPI: percentage of pairwise identity

Select the alignment to display in the graph below:



Define below a window to see on the multiple sequence alignment:


Start position: End Position:

or use a window midpoint (roll over a dot on the graph) to visualize the corresponding section of the alignment


Midpoint:

Click and drag on the graphs to zoom in

List of the most conserved genomic regions considering the PIS (30 nt windows):





Genome Position PIS
5386-5415 83.33
5387-5416 83.33
5388-5417 83.33
5389-5418 83.33
5390-5419 83.33
5391-5420 83.33
2838-2867 80.00
2839-2868 80.00
2842-2871 80.00
5383-5412 80.00

List of the most conserved genomic regions considering the PPI (30 nt windows):





Genome Position PPI
5386-5415 99.65
5387-5416 99.65
5388-5417 99.65
5389-5418 99.65
5390-5419 99.65
5391-5420 99.65
5383-5412 99.58
5384-5413 99.58
5385-5414 99.58
5382-5411 99.44