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475. DNAMAP: DNA Sequence Manipulation and Analysis
Package
by R. D. Blake, Department of Biochemistry, and Gary R. Day, Department of Mathematics, University of Maine, Orono, Maine 04469 QCPE 475 is essentially a package of programs which carries out the following analyses and manipulations: AMINOS: Analyzes a DNA sequence to obtain information concerning the proteins it contains. DOMAIN: Seeks out segments which possess a given G-C content. GCPLOT: Plots the G-C content as a function of position and window size. GCTOT: Calculates the base content and variances of each base and GC and AT as well as the correlation coefficients of A,C,G, and T. INVERT: Scans the sequence in search of homologies between the primary and complementary strands. LIST:Creates a numbered listing of the sequence. MATCH: Searches an entire sequence for homologies. MIRROR: Searches for mirror-image palindromes and pseudo-palindromes. NTUPLE: Calculates the triplets of a given size in one or more DNA sequences and calculates their relative and expected frequencies. PALIND: Performs true twofold symmetry analysis in searchof palindromesand pseudopalindromes. COMPARE: Compares two DNA sequences in search of identical segments. ENZYME: Reads enzyme names and recognition patterns from a file and searches for cleavage sites in a sequence. TUPGRAPH: Plots information regarding the occurrence of triplets in a DNA sequence. FORTRAN IV (IBM G-Level) Lines of Code: 4586 |