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Multiple alignment of sequences on parallel computers.

S Date·R Kulkarni·B Kulkarni·U Kulkarni-Kale·A S Kolaskar
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Abstract

A software package that allows one to carry out multiple alignment of protein and nucleic acid sequences of almost unlimited length and number of sequences is developed on C-DAC parallel computer--a transputer-based machine. The farming approach is used for data parallelization. The speed gains are almost linear when the number of transputers is increased from 4 to 64. The software is used to carry out multiple alignment of 100 sequences each of alpha-chain and beta-chain of hemoglobin and 83 cytochrome c sequences. The signature sequence of cytochrome c was found to be PGTKMXF. The single parameter, multiple alignment score, S, has been used to categorize proteins in different subfamilies and groups.

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AlgorithmsAmino Acid SequenceAnimalsComputer SystemsCytochrome c GroupGlobinsHumansMolecular Sequence DataSequence AlignmentSoftwareJournal ArticleResearch Support, Non-U.S. Gov't

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S Date, R Kulkarni, B Kulkarni, U Kulkarni-Kale, A S Kolaskar. 1993. Multiple alignment of sequences on parallel computers.. https://doi.org/10.1093/bioinformatics%2F9.4.397

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