In-silico evaluation of ‘Mirror Repeats’ In HIV Genome

Life Sciences-Bioinformatics for health care

Abstract

The  repetitive  sequences  played  an  important  role  in  the  characterization  of  both  prokaryotic  &  eukaryotic organisms. Various different  patterns  of repetitive sequences  have also been  identified in  organisms. Among all  the  repeat sequences. Mirror Repeats (MR`s) play an important role in various types of neurological disorders. These MR`s have also been reported  for structure  determination of genomes, triplex DNA formation & various other genome functions. We have followed a  distinguished  method  referred  to  as FPCB (FASTA PARALLEL COMPLEMENT  BLAST) for the  identification  of  MR`s. The above said method used to identify MR’s in both types of HIV viruses (HIV-1  & HIV-2).  Present investigation reported that MR’s are  frequently distributed in  all the  regions of the  genomes of both  types. As a result, 232 &  248 total numbers  of MR`s identified in both the HIV-1 & HIV-2  genome respectively. In addition, it was also revealed that the majority of the identified sequences are imperfect. The maximum length of MR`s in HIV-1 is of 47 nucleotides (NTD`s), however in case of HIV-2, it is of 49 nucleotides (NTD`s). Present investigation will be helpful for further development of a link between mirror repeats and host genome, which will be a new trend to block the viral integration as well as pathogenicity.