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© Oxford University Press

GLOBIC: a very fast microcomputer program for fingerprinting, characterization and comparision of long nucleotide sequences

Jan Mrázek and Jaroslav Kypr

Institute of Biophysics, Czechoslovak Academy of Sciences CS–61265 Brno, Czechoslovakia

This paper describes the program GLOBIC, which compares, characterizes and fingerprints even 0.1 Mbase sequences in a few minutes with the aid of an IBM-AT microcomputer. Instead of the nucleotide sequences themselves, GLOBIC compares the local nucleotide or short oligonucleotide compositions. GLOBIC presents two-dimensional maps of contour lines depicting the similarity of two different sequences, a sequence compared to itself, to its complementary sequence or to a random sequence. A vocabulary is presented to translate the typical patterns appearing in the two-dimensional maps into their meanings as relationships between the compared sequences. The application of GLOBIC is demonstrated using several examples from the genomic nucleotide sequences of bacteriophage T7, adenovirus type-2 and Epstein–Barr virus.

Received on April 4, 1991; accepted on June 12, 1991

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