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. 2014 Jun;196(11):2030–2042. doi: 10.1128/JB.01368-13

FIG 5.

FIG 5

Further examples of candidate genes identified by SearchDOGS. (A) Salmonella enterica subsp. enterica serovar Typhi strain Ty2 gene t4378 coding for hypothetical protein AAO71829.1 hits ORFs coding for proteins with near-identical protein sequences at a syntenic location in E. coli K-12, E. coli O157:H7, E. coli S88, and S. boydii. (B) TCOFFEE protein sequence alignment corresponding to an annotated gene in E. coli O157:H7 (bottom sequence) and highly conserved unannotated ORFs at a syntenic location in E. coli K-12, E. coli S88, S. boydii, S. enterica, and Y. pestis (84). SearchDOGS also hits a more highly diverged ORF with sequence similarity in P. syringae (not shown).