How to display Transposon insertions in DNAplotter !

[MSA89]

Hi all,

I'm new to this subject, and I guess I have a very basic question.

I have my transposon mutant library, and I want to visualize the mapped transposon insertions to the reference genome via DNAplotter (Artemis).

I need the circular plot to be like the attached picture from the literature (where the red lines represent the transposon insertions).

In my case, I can only visualize the reference genome in DNAplotter because it is in EMBL format, but I could not import the transposon insertions to the polt.

The reason may be that non of the output files from BioTradis pipeline are in EMBL, GFF or GENBANK format (the mapped output files of transposon insertions are in BAM and fq.gz). Therefore, could anyone help or suggest how can I visualize the transposon insertions to the reference genome in DNAplotter.

Thanks in advance,

[mpapange]

I did the following: To use dna plotter with the plots.gz:

1. Unzip the plot

gunzip *.insert_site_plot.gz

2. Split the file into 2 files with one column each (DNA plotter can only read files with 1 column)

awk '{ print $1 > "file1"; print $2 > "file2"}' *.insert_site_plot

3. Go to artemis> File> Open in DNAplotter> Graphs> UserGraph> Add the two files