DistAMo: A Web-Based Tool to Characterize DNA-Motif Distribution on Bacterial Chromosomes.

ABSTRACT: Short DNA motifs are involved in a multitude of functions such as for example chromosome segregation, DNA replication or mismatch repair. Distribution of such motifs is often not random and the specific chromosomal pattern relates to the respective motif function. Computational approaches which quantitatively assess such chromosomal motif patterns are necessary. Here we present a new computer tool DistAMo (Distribution Analysis of DNA Motifs). The algorithm uses codon redundancy to calculate the relative abundance of short DNA motifs from single genes to entire chromosomes. Comparative genomics analyses of the GATC-motif distribution in γ-proteobacterial genomes using DistAMo revealed that (i) genes beside the replication origin are enriched in GATCs, (ii) genome-wide GATC distribution fol

SUBMITTER: Sobetzko P 

PROVIDER: S-EPMC4786541 | biostudies-literature | 2016

REPOSITORIES: biostudies-literature