Phage_Finder: Automated identification and classification of prophage regions in complete bacterial genome sequences
作者： Derrick E. Fouts
DOI: 10.1093/NAR/GKL732
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摘要: Phage_Finder, a heuristic computer program, was created to identify prophage regions in completed bacterial genomes. Using test dataset of 42 genomes whose prophages have been manually identified, Phage_Finder found 91% the regions, resulting 7% false positive and 9% negative prophages. A search 302 complete predicted 403 putative accounting for 2.7% total DNA. Analysis 285 attachment sites revealed tRNAs are targets integration slightly more frequently (33%) than intergenic (31%) or intragenic (28%) while tmRNAs were targeted 8% regions. The most popular tRNA Arg, Leu, Ser Thr. Mapping insertion point on consensus molecule novel points 5' side D loop, 3' anticodon loop anticodon. method constructing phylogenetic trees phages developed based mean BLAST score ratio (BSR) phage/prophage proteomes. This verified many known bacteriophage groups, making this useful tool predicting relationships from
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