Browsing repeats in genomes: Pygram and an application to non-coding region analysis
Related Experiment Video
Updated: Jul 19, 2026

A Rapid High-throughput Method for Mapping Ribonucleoproteins (RNPs) on Human pre-mRNA
Published on: December 2, 2009
Patrick Durand1, Frédéric Mahé, Anne-Sophie Valin
1IRISA/INRIA, Campus de Beaulieu, 35042 Rennes Cedex, France. Patrick.Durand@irisa.fr
Background:
A large number of studies on genome sequences have revealed the major role played by repeated sequences in the structure, function, dynamics and evolution of genomes. In-depth repeat analysis requires specialized methods, including visualization techniques, to achieve optimum exploratory power.
Results:
This article presents Pygram, a new visualization application for investigating the organization of repeated sequences in complete genome sequences. The application projects data from a repeat index file on the analysed sequences, and by combining this principle with a query system, is capable of locating repeated sequences with specific properties. In short, Pygram provides an efficient, graphical browser for studying repeats. Implementation of the complete configuration is illustrated in an analysis of CRISPR structures in Archaea genomes and the detection of horizontal transfer between Archaea and Viruses.
Conclusion:
By proposing a new visualization environment to analyse repeated sequences, this application aims to increase the efficiency of laboratories involved in investigating repeat organization in single genomes or across several genomes.
More Related Videos
12:29Identifying Transcription Factor Olig2 Genomic Binding Sites in Acutely Purified PDGFRα+ Cells by Low-cell Chromatin Immunoprecipitation Sequencing Analysis
Published on: April 16, 2018
06:40G2-seq: A High Throughput Sequencing-based Technique for Identifying Late Replicating Regions of the Genome
Published on: March 22, 2018
Related Concept Videos
Ribosome Profiling
Applications of ribosome profiling
Ribosome profiling has many applications, including in vivo monitoring of translation inside a particular organ or tissue type and quantifying new protein synthesis levels.
The technique helps...
Genome Annotation and Assembly
Evolutionary Relationships through Genome Comparisons
Genomic DNA in Eukaryotes
Sanger Sequencing
Genomic DNA in Prokaryotes
Genomic Diversity in Bacteria
Although bacterial genomes are much...