Prophage Prediction

*Genome information in GenBank format:

Upload a GenBank file and run the prediction

*Number of consecutive genes in a region of window size that must be prophage genes to be called:

*Minimum contig size (in bp) to be included in the analysis. Smaller contigs will be dropped:

*Window size of consecutive genes to look through to find phages:

*The number of non-phage genes between prophages:

*Minimum repeat length to search for:

Application Information

More Info

Combining sequence similarity matching and machine learning classification models of genetic characteristics, predict active prophages from whole-genome sequences

Running time: <3min
Sample input: prophage_input.gbk
Example output: SAMPLE result

Reference

如果您在研究中使用了本工具，请在文章中引用下列文章:

TracePatho. 2025. TracePatho: All-in-one microbial analysis platform. Accessed July 9, 2025. https://tracepatho.com/.

Akhter S, Aziz RK, Edwards RA. PhiSpy: a novel algorithm for finding prophages in bacterial genomes that combines similarity- and composition-based strategies. Nucleic Acids Res. 2012;40(16):e126. doi:10.1093/nar/gks406