OligoWeb: searching oligonucleotide frequencies

 
Several aspects of genomes may be searched to compare them. In this website we have focussed on frequency of nucleotides and oligonucleotides, which may be used to describe a genome. The genomic signature concept has been applied to refer to the characteristic frequencies of oligonucleotides in a particular genome.

Select genome in the right to find out data for each sequenced strain.

Assignment of DNA sequences to genomes
Find the genomes showing a oligonucleotide composition similar to the one in your sequence, or compare several sequences.

Distance between plasmids/bacteriophages and prokaryotic chromosomes
Check oligonucleotide composition based distance between genetic elements within a prokariotic cell.

Dendrograms obtained by comparing oligonucleotide composition of prokaryotes
Oligonucleotide composition of prokaryotic chromosomes has been compared and distances computed. Oligonucleotides 2 to 8 bases long were studied and dendrograms for each length generated.

Ocurrence of oligonucleotides in prokaryotes
This tool allows searching for frequency of a specific oligonucleotide in all sequenced prokaryote.


Developed by
Dr. Joseba Bikandi at the University of the Basque Country (Vitoria-Gasteiz, Spain).
  E-mail: Joseba.Bikandi at ehu.es
Dr. Alex Mira at Universidad Miguel Hernández (Alicante, Spain).
  E-mail: Alex.mira at umh.es

Select genera


Experiments with user's sequences


Compute oligonucleotide frequencies
Compare multiple sequences between each other