IRF 3.07 – Inverted Repeats Finder

IScan is a package to identify insertion sequences and similar transposable elements, their inverted repeats, and the direct target repeats they generate in entire genomes.

::DEVELOPER

Andreas Wagner Laboratory

:: SCREENSHOTS

N/A

:: REQUIREMENTS

Linux / Windows / Mac OsX
Perl
Bioperl
BLAST
CLUSTALW

:: DOWNLOAD

IScan

:: MORE INFORMATION

Citation

Nucleic Acids Res. 2007;35(16):5284-93. Epub 2007 Aug 7.
A survey of bacterial insertion sequences using IScan.
Wagner A, Lewis C, Bichsel M.

MITE-Hunter 201111 – Discovering miniature inverted-repeat Transposable Elements from Genomic Sequences

MITE-Hunter 201111

:: DESCRIPTION

MITE-Hunter was designed to identify miniature invertedrepeat transposable elements (MITEs) as well as other small (< 2Kb, default) class 2 nonautonomous transposable elements (TEs) from genomic DNA datasets. Class 1 TEs and long TEs can’t be found by MITE-Hunter. TEs with too many mutations and mismatches in the terminal inverted repeats (TIRs) may not be detected.

::DEVELOPER

MITE-Hunter team

:: SCREENSHOTS

N/A

:: REQUIREMENTS

Linux
Perl
NCBI BLAST
Muscle
mDust

:: DOWNLOAD

MITE-Hunter

:: MORE INFORMATION

Citation

Nucl. Acids Res. (2010) 38 (22): e199.
MITE-Hunter: a program for discovering miniature inverted-repeat transposable elements from genomic sequences
Yujun Han and Susan R. Wessler

detectIR 20150213 – Detection of Perfect and Imperfect Inverted Repeats

detectIR 20150213

:: DESCRIPTION

detectIR is a MATLAB-based tool for detecting perfect and imperfect inverted repeats in genomes.

::DEVELOPER

Liang Lab

:: SCREENSHOTS

N/A

:: REQUIREMENTS

Windows / Linux/ MacOsX
MatLab

:: DOWNLOAD

detectIR

:: MORE INFORMATION

Citation

PLoS One. 2014 Nov 19;9(11):e113349. doi: 10.1371/journal.pone.0113349. eCollection 2014.
detectIR: a novel program for detecting perfect and imperfect inverted repeats using complex numbers and vector calculation.
Ye C, Ji G, Li L, Liang C