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Detection of Rare Mutations in CtDNA Using Next Generation Sequencing

Detection of Rare Mutations in CtDNA Using Next Generation Sequencing

Published on: August 24, 2017

NTRFinder: a software tool to find nested tandem repeats.

Atheer A Matroud¹, M D Hendy, C P Tuffley

¹Institute of Fundamental Sciences, Massey University, Private Bag 11 222, Palmerston North 4442, New Zealand. a.a.matroud@massey.ac.nz

Nucleic Acids Research

|November 29, 2011

Summary

We developed NTRFinder, a software tool to identify nested tandem repeats (NTRs) in DNA. These complex DNA structures can serve as valuable phylogenetic and population markers.

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Area of Science:

Genomics
Bioinformatics
Molecular Evolution

Background:

Tandem repeats are common in genomes but complex structures remain challenging to identify.
Nested tandem repeats (NTRs) represent a novel class of repetitive DNA with potential biological significance.

Purpose of the Study:

To introduce NTRFinder, a novel software tool for detecting NTRs.
To evaluate the utility of NTRs as phylogenetic and population markers.

Main Methods:

Development of the NTRFinder algorithm for identifying interspersed tandem motifs.
Testing the algorithm using both simulated and real DNA sequence data.

Main Results:

Successful identification of NTRs in analyzed datasets.

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Last Updated: May 27, 2026

Detection of Rare Mutations in CtDNA Using Next Generation Sequencing

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Demonstration of NTRFinder's capability to detect complex repetitive DNA structures.

Conclusions:

NTRs are identifiable using specialized bioinformatics tools.
NTRs show promise as markers for evolutionary studies and population genetics.