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ORF Investigator: A New ORF finding tool combining Pairwise Global Gene Alignment

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Author Affiliations

  • 1Department of Bioinformatics, UCST, Dehradun, INDIA
  • 2 Department of Biotechnology, DDU University, Gorakhpur, INDIA

Res. J. Recent Sci., Volume 1, Issue (11), Pages 32-35, November,2 (2012)

Abstract

Bioinformatics tools have become an integral part of the molecular data generated during the DNA fingerprinting of fungal pathogens. Finding and annoting the coding and non coding regions and final product in the form of its amino acid sequences is prerequisite for understanding the evolutionary processes in different pathogenic, fungi, as well as the species used for bioremediation, the medicinal and for biofertilizers applications. In the present study an attempt has been made to develop a tool “ORF Investigator” which not only gives information about the coding and non coding sequences but also can perform pairwise global alignment of different gene/DNA regions sequences. The tool efficiently finds out the ORFs for corresponding amino acid sequences and converts them into their one letter amino acid code declaring their respecting positions in the sequence stretch. The pairwise global alignment between the sequences makes it convenient to detect the different mutations including single nucleotide polymorphism. Needleman and Wunsch algorithms are used for the gene alignment and the coding has been done in PERL language making it suitable for windows user.

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