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This abstract was last modified on May 1, 2015 at 11:04 a.m..
Cluster T consists of only phages Mendokysei (UC-Santa Cruz), Bernal13 (University of Florida), and RonRayGun (Ouachita Baptist University). Students at Ouachita Baptist University conducted a bioinformatic analysis of phages in Cluster T in collaboration with both UC-Santa Cruz and U of Florida. At OBU, we focused on characterizing the location of promoters, terminators, integrase, attachment sites, transfer RNA, and repetitive elements found in all three phages. Using either DNAMaster or the web base software PePPER, 6 SigA-like promoters were identified in all members of Cluster T. Seven hair-pin terminators were identified using ARNold and Softberry. Repetitive elements were discovered through the use of Gepard dot plots and MEME logo analysis. Interestingly, only Bernal 13 and RonRayGun contained a potential repetitive motif in Pham 8914 (GP48) However, it appears this pham is deleted from the Mendokysei genome. Nether ARAGORN or tRNAscan-SE found tRNAs in the genomes of phages in Cluster T. However, while all three phage contain Pham 694 (GP25) only in Mendokysei does Pham 694 contain a tRNA like secondary structure. The genomic identification of regulatory sequences in Cluster T has allowed us to begin wet-lab type projects that will lead towards the verification of bioinformatically identified elements in the future.