GENEMARK PREDICTIONS Sequence: gi|16082679|ref|NC_003132.1| Yersinia pestis CO92 plasmid pPCP1, complete sequence Sequence file: NC_003132.fna Sequence length: 9612 GC Content: 45.27% Window length: 96 Window step: 12 Threshold value: 0.500 --- Matrix: Heuristic, GC = 45 Matrix author: Borodovsky Laboratory - Georgia Tech, School of Biology, Atlanta, GA, USA Matrix order: 2 List of Open reading frames predicted as CDSs, shown with alternate starts (regions from start to stop codon w/ coding function >0.50) Left Right DNA Coding Avg Start end end Strand Frame Prob Prob -------- -------- ---------- ----- ---- ---- 1106 1888 direct fr 2 0.75 0.82 1109 1888 direct fr 2 0.75 0.76 1112 1888 direct fr 2 0.75 0.72 2925 3119 direct fr 3 0.66 0.48 2955 3119 direct fr 3 0.69 0.12 4815 5888 complement fr 2 0.62 0.30 4815 5876 complement fr 2 0.62 0.24 4815 5870 complement fr 2 0.62 0.07 4815 5762 complement fr 2 0.69 0.42 4815 5729 complement fr 2 0.69 0.79 4815 5720 complement fr 2 0.68 0.55 6006 6422 direct fr 3 0.62 0.12 6117 6422 direct fr 3 0.66 0.04 6291 6422 direct fr 3 0.61 0.44 6665 7603 direct fr 2 0.56 0.24 6683 7603 direct fr 2 0.57 0.11 6788 7603 direct fr 2 0.62 0.64 6812 7603 direct fr 2 0.62 0.46 6968 7603 direct fr 2 0.58 0.76 7790 8089 complement fr 1 0.72 0.18 7790 8071 complement fr 1 0.77 0.20 7790 8026 complement fr 1 0.73 0.75 7790 8014 complement fr 1 0.72 0.67 8089 8436 complement fr 3 0.60 0.68 8089 8430 complement fr 3 0.60 0.81 List of Regions of interest (regions from stop to stop codon w/ a signal in between) LEnd REnd Strand Frame -------- -------- ----------- ----- 39 1109 direct fr 3 492 830 complement fr 2 1028 1888 direct fr 2 2580 2870 direct fr 3 2868 3119 direct fr 3 4247 4780 direct fr 2 4815 5903 complement fr 2 5883 6422 direct fr 3 6653 7603 direct fr 2 7628 7792 complement fr 1 7790 8128 complement fr 1 8089 8469 complement fr 3 9135 9368 complement fr 2 9268 9612 complement fr 3 -------------------- ABOUT THE MATRIX USED: For details on the model building procedure see: Besemer J. and Borodovsky M. "Heuristic approach to deriving models for gene finding" NAR, 1999, Vol. 27, No. 19, pp. 3911-3920