FAN: fingerprint analysis of nucleotide sequences

FAN: fingerprint analysis of nucleotide sequences

FAN is a server for fingerprint analysis of nucleotide sequences. The server performs a search of submitted nucleotide sequences against the PRINTS database. Searches are performed directly against fingerprints using a codon position specific score matrix (PSSM) approach. The advantages of this approach are increased specificity for coding sequence (CDS) over non-CDS, and increased tolerance to...

Statistical analysis of nucleotide sequences.

In order to scan nucleic acid databases for potentially relevant but as yet unknown signals, we have developed an improved statistical model for pattern analysis of nucleic acid sequences by modifying previous methods based on Markov chains. We demonstrate the importance of selecting the appropriate parameters in order for the method to function at all. The model allows the simultaneous analysi...

Triander: A new program for visual analysis of nucleotide sequences

The Triander program is an interactive software package for nucleotide sequence visualization. The program was developed using the freeware Pascal RAD IDE Lazarus, and its source code and binaries compiled for Windows are freely accessible at http://www.icbge.org.ua/eng/Triander . Triander can produce four types of plots. It is possible to build three DNA walks independently for each nucleotide...

Nucleotide sequences in DNA

Recent Developments in the Analysis of Nucleotide Sequences by using Nucleotide Genomic Signals

The nucleotide genomic signal (NuGS) methodology allows to use powerful signal processing methods in the analysis of genomic data. The method reveals surprising global regularities in the distribution of nucleotides and pairs of nucleotides along genomic sequences in archaea, bacteria and eukarya. Both manifest and hidden regularities can be detected, the method being also effective for the loc...