GENEMARK PREDICTIONS Sequence: gi|32456045|ref|NC_004943.1| Bifidobacterium longum NCC2705 plasmid pBLO1, complete sequence Sequence file: NC_004943.fna Sequence length: 3626 GC Content: 64.81% Window length: 96 Window step: 12 Threshold value: 0.500 --- Matrix: Heuristic, GC = 65 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 -------- -------- ---------- ----- ---- ---- 45 557 direct fr 3 0.80 .... 48 557 direct fr 3 0.80 .... 186 557 direct fr 3 0.79 0.77 252 557 direct fr 3 0.75 0.24 270 557 direct fr 3 0.73 0.19 791 1690 direct fr 2 0.82 0.71 797 1690 direct fr 2 0.83 0.61 812 1690 direct fr 2 0.84 0.67 863 1690 direct fr 2 0.83 0.11 875 1690 direct fr 2 0.83 0.00 1687 3384 complement fr 3 0.82 0.50 1687 3354 complement fr 3 0.83 0.01 1687 3294 complement fr 3 0.82 0.76 1687 3243 complement fr 3 0.82 0.11 List of Regions of interest (regions from stop to stop codon w/ a signal in between) LEnd REnd Strand Frame -------- -------- ----------- ----- 30 557 direct fr 3 755 1690 direct fr 2 1231 1539 complement fr 3 1639 3405 direct fr 1 1687 3603 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