Command: /data/pg-molgen/software/bagel4/tools/glimmer3.02/bin/glimmer3 -C 51.5 -o 12 -g 120 -t 12 -r -l /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Porphyromonas_gingivalis.result/NZ_FUGF010000491.2881.AOI_01.fna /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Porphyromonas_gingivalis.result/GLIMMER.icm /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Porphyromonas_gingivalis.result/NZ_FUGF010000491.2881.AOI_01 Sequence file = /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Porphyromonas_gingivalis.result/NZ_FUGF010000491.2881.AOI_01.fna Number of sequences = 1 ICM model file = /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Porphyromonas_gingivalis.result/GLIMMER.icm Excluded regions file = none List of orfs file = none Input is NOT separate orfs Independent (non-coding) scores are NOT used Circular genome = false Truncated orfs = false Minimum gene length = 120 bp Maximum overlap bases = 12 Threshold score = 12 Use first start codon = false Start codons = atg,gtg,ttg Start probs = 0.600,0.300,0.100 Stop codons = taa,tag,tga GC percentage = 51.5% >NZ_FUGF010000491.2881.AOI_01 Sequence length = 21122 ----- Start ----- --- Length ---- ----------- Scores ------------ ID Frame of Orf of Gene Stop of Orf of Gene Raw InFrm F1 F2 F3 R1 R2 R3 0001 -1 177 171 31 144 138 -0.87 99 - 0 - 99 - 0 0002 +2 2 71 208 204 135 -6.65 99 - 99 - - - - 0003 +3 351 369 500 147 129 -4.20 90 - - 90 - 9 - +1 856 859 987 129 126 -4.42 0 0 - - - - 99 +2 977 1058 1204 225 144 -9.41 0 - 0 - 0 - 99 -1 1350 1137 994 354 141 -6.28 0 - 0 - 0 0 99 -2 1372 1315 1193 177 120 -2.69 0 - - 3 0 0 96 +3 1068 1248 1388 318 138 -3.12 1 - - 1 - - 98 0004 -3 1490 1328 807 681 519 3.09 99 - - - - - 99 -3 1724 1643 1491 231 150 -8.44 0 0 - - 99 - 0 -2 1852 1801 1568 282 231 -8.91 0 0 - - 99 0 - -3 1976 1904 1782 192 120 -4.69 0 73 - - 26 - 0 -3 2159 2144 1977 180 165 -4.80 0 98 - - 1 0 0 -2 2296 2155 1877 417 276 -11.64 0 99 - - 0 0 - 0005 -1 2325 2274 1351 972 921 2.66 99 0 - - 99 - - 0006 +3 2256 2256 2390 132 132 -2.09 99 0 - 99 - - - 0007 +1 1255 1675 2397 1140 720 0.10 99 99 - - - - - +1 2398 2425 2556 156 129 -9.29 0 0 0 0 - 99 0 +3 2409 2415 2576 165 159 -3.78 0 - 0 0 - 99 0 +2 2285 2450 2593 306 141 -4.41 0 - 0 - - 99 0 -3 2603 2477 2319 282 156 -9.33 0 - 0 - - 99 0 0008 +3 2715 2727 2855 138 126 -3.77 95 - 1 95 - 3 - +2 2594 2609 2869 273 258 -1.45 5 - 5 - - 94 - +1 2794 2797 2982 186 183 -0.51 0 0 - - 99 0 - 0009 -2 2998 2749 2297 699 450 3.48 99 - - - - 99 - +2 2912 2951 3100 186 147 -6.46 0 - 0 - 99 - - -3 3143 3125 2976 165 147 -7.33 1 - - - 98 - 1 0010 -1 3147 3024 2746 399 276 4.33 99 - - - 99 - - +1 3082 3097 3351 267 252 -4.79 0 0 - - - 99 - +3 3246 3318 3440 192 120 -4.01 0 - 0 0 - 99 0 -3 3467 3401 3144 321 255 -6.25 0 - - - - 99 0 +2 3311 3326 3502 189 174 0.59 0 - 0 - - 99 - 0011 -2 3610 3604 2999 609 603 7.69 99 - - - - 99 - +2 3638 3782 3949 309 165 -10.07 0 - 0 - 99 - - -3 3974 3974 3846 126 126 -0.80 0 0 - - 99 - 0 +1 3850 3853 3978 126 123 -0.45 0 0 - - 99 - 0 0012 -1 4284 4083 3634 648 447 7.48 99 - - - 99 - - +1 4297 4306 4449 150 141 -2.92 0 0 - 0 - - 99 +2 4352 4634 4783 429 147 -10.05 0 - 0 99 - - 0 +3 4221 4233 4844 621 609 2.13 0 - - 0 - - 99 -1 4977 4935 4645 330 288 -10.06 0 - - - 0 - 99 +1 4753 4798 5088 333 288 -3.87 0 0 - - - - 99 +3 4845 4929 5204 357 273 1.70 0 - 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