TRACTS: A program to map oligopurine.oligopyrimidine and other binary DNA tracts.
A program to map the locations and frequencies of DNA tracts composed of only two bases ('Binary DNA') is described. The program, TRACTS (URL http://bioportal.weizmann.ac.il/tracts/tracts.html and/or http://bip.weizmann.ac.il/miwbin/servers/tracts) is of interest because long tracts composed of only two bases are highly over-represented in most genomes. In eukaryotes, oligopurine.oligopyrimidine tracts ('R.Y tracts') are found in the highest excess. In prokaryotes, W tracts predominate (A,T 'rich'). A pre-program, ANEX, parses database annotation files of GenBank and EMBL, to produce a convenient one-line list of every gene (exon, intron) in a genome. The main unit lists and analyzes tracts of the three possible binary pairs (R.Y, K.M and S;W). As an example, the results of R.Y tract mapping of mammalian gene p53 is described.
Gal
Moshe
M
BioMining Ltd, POB 2526, Kadima, Israel. gad.yagil@weizmann.ac.il
Katz
Tzvi
T
Ovadia
Amir
A
Yagil
Gad
G
D001482:Base Composition; D001483:Base Sequence; D004247:DNA / Q000737:chemistry; D016158:Genes, p53; D006801:Humans; D020407:Internet; D011687:Purines / Q000032:analysis*; D011743:Pyrimidines / Q000032:analysis*; D017422:Sequence Analysis, DNA / Q000379:methods*; D012984:Software; D014584:User-Computer Interface
D011687:Purines; D011743:Pyrimidines; D004247:DNA