GENEMARK PREDICTIONS Sequence: gi|32470520|ref|NC_005003.1| Staphylococcus epidermidis ATCC 12228 plasmid pSE-12228-06, complete sequence Sequence file: NC_005003.fna Sequence length: 6585 GC Content: 31.50% Window length: 96 Window step: 12 Threshold value: 0.500 --- Matrix: Heuristic, GC = 31 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 -------- -------- ---------- ----- ---- ---- 51 245 direct fr 3 0.52 .... 129 245 direct fr 3 0.62 0.95 341 1141 direct fr 2 0.52 0.17 392 1141 direct fr 2 0.55 0.77 416 1141 direct fr 2 0.55 0.22 488 1141 direct fr 2 0.50 0.17 1477 1863 direct fr 1 0.67 0.71 1498 1863 direct fr 1 0.69 0.20 1570 1863 direct fr 1 0.78 0.47 1621 1863 direct fr 1 0.76 0.41 1723 1863 direct fr 1 0.62 0.09 2020 3039 direct fr 1 0.76 0.11 2029 3039 direct fr 1 0.76 0.04 2125 3039 direct fr 1 0.77 0.11 2227 3039 direct fr 1 0.75 0.12 2407 3039 direct fr 1 0.74 0.04 2894 3547 direct fr 2 0.51 0.01 2942 3547 direct fr 2 0.55 0.14 3245 3547 direct fr 2 0.54 0.52 3260 3547 direct fr 2 0.53 0.12 4425 5249 direct fr 3 0.84 0.71 4524 5249 direct fr 3 0.85 0.26 4707 5249 direct fr 3 0.82 0.07 4788 5249 direct fr 3 0.80 0.05 5297 5908 complement fr 1 0.73 0.70 5297 5902 complement fr 1 0.74 0.73 5297 5803 complement fr 1 0.76 0.19 5297 5743 complement fr 1 0.73 0.05 5297 5686 complement fr 1 0.70 0.36 List of Regions of interest (regions from stop to stop codon w/ a signal in between) LEnd REnd Strand Frame -------- -------- ----------- ----- 30 245 direct fr 3 329 1141 direct fr 2 802 978 complement fr 3 1474 1863 direct fr 1 1966 3039 direct fr 1 2672 3547 direct fr 2 4389 5249 direct fr 3 5038 5310 complement fr 3 5297 5914 complement fr 1 5932 6162 direct fr 1 -------------------- 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