Multiple alignment of sequences on parallel computers.
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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Center for Development of Advanced Computing, University of Poona, Pune, India.
Kulkarni
R
R
Kulkarni
B
B
Kulkarni-Kale
U
U
Kolaskar
A S
AS
D000465:Algorithms; D000595:Amino Acid Sequence; D000818:Animals; D003199:Computer Systems; D003574:Cytochrome c Group / Q000235:genetics; D005914:Globins / Q000235:genetics; D006801:Humans; D008969:Molecular Sequence Data; D016415:Sequence Alignment / Q000379:methods* / Q000706:statistics & numerical data; D012984:Software
D003574:Cytochrome c Group; D005914:Globins