Tools for identifying transposons on the genome of P. aeruginosa

Question

[hgu0618]

Are there any web-based software for identifying transposons on P. aeruginosa genome? We have some whole genome sequence data (denova assemly). We want to identify the transposons using the whole genome sequence data.

Answer 1

[natasha.sernova]

Try the following tools:

http://bmcgenomics.biomedcentral.com/articles/10.1186/s12864-015-1860-2

http://www.nature.com.sci-hub.cc/nrmicro/journal/v11/n7/abs/nrmicro3033.html

http://www.nature.com/hdy/journal/v104/n6/full/hdy2009165a.html

These tools below are for higher organisms with introns, sequencing technique does matter:

https://omictools.com/transposon-detection-category

http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4696183/

Detecting transposable elements in both assembled genomes and raw reads

[hgu0618]

Thank you very much.