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An interactive graphics program for comparing and aligning nucleic acid and amino acid sequences

R Staden

    Nucleic Acids Research
    |May 11, 1982
    PubMed
    Summary

    This program identifies similarities in nucleic and amino acid sequences using a scoring matrix. It interactively displays alignments on a graphics terminal for detailed analysis and saving.

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    Area of Science:

    • Bioinformatics
    • Computational Biology
    • Molecular Biology

    Background:

    • Sequence comparison is fundamental to understanding biological function.
    • Identifying similarities aids in gene discovery and protein function prediction.

    Purpose of the Study:

    • To present a novel computer program for nucleic and amino acid sequence similarity searching.
    • To enable interactive visualization and detailed analysis of sequence alignments.

    Main Methods:

    • The program compares pairs of nucleic or amino acid sequences.
    • It identifies regions of perfect identity or similarity exceeding a scoring matrix threshold.
    • Results are visualized as a matrix on a graphics terminal for interactive exploration.

    Main Results:

    • The program facilitates the display of entire sequences or zoomed-in regions of interest.
    • Interactive adjustments of variables and editing functions allow for sequence alignment refinement.
    • Aligned sequences can be saved for subsequent analysis.

    Conclusions:

    • The developed program offers an effective tool for sequence similarity analysis.
    • Interactive visualization and editing capabilities enhance the process of sequence alignment.
    • The program supports further downstream processing of aligned biological sequences.

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