GENEMARK PREDICTIONS Sequence: gi|170016273|ref|NC_010467.1| Leuconostoc citreum KM20 plasmid pLCK3, complete sequence Sequence file: NC_010467.fna Sequence length: 17971 GC Content: 33.00% Window length: 96 Window step: 12 Threshold value: 0.500 --- Matrix: Heuristic, GC = 33 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 -------- -------- ---------- ----- ---- ---- 282 1436 direct fr 3 0.82 0.25 315 1436 direct fr 3 0.84 0.17 348 1436 direct fr 3 0.84 0.59 387 1436 direct fr 3 0.85 0.45 408 1436 direct fr 3 0.85 0.48 1429 1950 direct fr 1 0.79 0.77 1600 1950 direct fr 1 0.85 0.15 1615 1950 direct fr 1 0.84 0.05 2147 3034 direct fr 2 0.74 0.39 2240 3034 direct fr 2 0.77 0.48 2351 3034 direct fr 2 0.74 0.20 2567 3034 direct fr 2 0.72 0.49 4037 4489 complement fr 1 0.64 0.46 4037 4381 complement fr 1 0.74 0.04 5383 5979 direct fr 1 0.72 0.95 5518 5979 direct fr 1 0.72 0.03 5584 5979 direct fr 1 0.72 0.80 5668 5979 direct fr 1 0.68 0.33 5683 5979 direct fr 1 0.67 0.12 6161 6760 complement fr 1 0.68 0.89 6161 6748 complement fr 1 0.69 0.95 6161 6736 complement fr 1 0.70 0.08 6161 6595 complement fr 1 0.68 0.71 6161 6577 complement fr 1 0.67 0.85 8516 8827 direct fr 2 0.75 0.46 8612 8827 direct fr 2 0.79 0.52 8852 9178 direct fr 2 0.65 0.65 9032 9178 direct fr 2 0.65 0.13 9186 10115 direct fr 3 0.90 0.99 9231 10115 direct fr 3 0.93 0.02 9270 10115 direct fr 3 0.93 0.10 9276 10115 direct fr 3 0.93 0.14 10125 10784 direct fr 3 0.76 0.32 10185 10784 direct fr 3 0.82 0.73 10197 10784 direct fr 3 0.82 0.59 10320 10784 direct fr 3 0.80 0.42 10801 10932 direct fr 1 0.64 0.15 10819 10932 direct fr 1 0.60 0.02 10961 12298 direct fr 2 0.88 0.64 11024 12298 direct fr 2 0.90 0.39 11387 12298 direct fr 2 0.88 0.27 11438 12298 direct fr 2 0.90 0.69 11489 12298 direct fr 2 0.90 0.03 12445 13101 direct fr 1 0.71 0.54 12628 13101 direct fr 1 0.74 0.30 12727 13101 direct fr 1 0.77 0.84 12757 13101 direct fr 1 0.75 0.29 13141 13461 direct fr 1 0.66 0.84 13186 13461 direct fr 1 0.74 0.16 13243 13461 direct fr 1 0.73 0.49 13246 13461 direct fr 1 0.73 0.43 13327 13461 direct fr 1 0.59 0.07 13586 13966 direct fr 2 0.56 0.74 13631 13966 direct fr 2 0.62 0.29 13820 13966 direct fr 2 0.67 0.80 13935 14525 direct fr 3 0.78 0.23 13971 14525 direct fr 3 0.83 0.47 14112 14525 direct fr 3 0.80 0.07 14244 14525 direct fr 3 0.74 0.45 14686 15492 complement fr 3 0.60 0.71 14686 15444 complement fr 3 0.60 0.00 14686 15246 complement fr 3 0.60 0.03 14686 15231 complement fr 3 0.60 0.02 15538 15780 complement fr 3 0.64 0.42 15912 16097 complement fr 2 0.75 0.74 15912 16031 complement fr 2 0.60 0.24 16468 17748 direct fr 1 0.85 0.31 16513 17748 direct fr 1 0.87 0.31 16546 17748 direct fr 1 0.88 0.01 16609 17748 direct fr 1 0.87 0.45 List of Regions of interest (regions from stop to stop codon w/ a signal in between) LEnd REnd Strand Frame -------- -------- ----------- ----- 213 1436 direct fr 3 1423 1950 direct fr 1 2120 3034 direct fr 2 3383 3556 complement fr 1 3765 3998 complement fr 2 4037 4495 complement fr 1 5096 5284 direct fr 2 5359 5979 direct fr 1 6161 6787 complement fr 1 7098 7688 direct fr 3 7394 7588 complement fr 1 7804 7998 direct fr 1 8138 8308 complement fr 1 8483 8827 direct fr 2 8849 9178 direct fr 2 9168 10115 direct fr 3 10113 10784 direct fr 3 10744 10932 direct fr 1 10937 12298 direct fr 2 12442 13101 direct fr 1 13132 13461 direct fr 1 13568 13966 direct fr 2 13914 14525 direct fr 3 14686 15540 complement fr 3 15538 15801 complement fr 3 15912 16277 complement fr 2 16351 17748 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