Fig. 2
Depth and coverage of one SOLiDâ„¢ sequencing of the HIV-1 genome. The major peaks in the middle representing the most deeply covered regions coincide with the overlapping primers from the PCR step, an evidence that there is in fact some influence of pre-sequencing phases on the frequency of the short-reads retained in the alignment. The major peak in the beginning is related to the difficulties in mapping the LTR region. Other significant peaks maybe due to PCR artifacts, as well