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_FUFJ010000141.3220.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_FUFJ010000141.3220.AOI_01 Sequence file = /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Porphyromonas_gingivalis.result/NZ_FUFJ010000141.3220.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_FUFJ010000141.3220.AOI_01 Sequence length = 20240 ----- Start ----- --- Length ---- ----------- Scores ------------ ID Frame of Orf of Gene Stop of Orf of Gene Raw InFrm F1 F2 F3 R1 R2 R3 0001 +2 2 23 289 285 264 -3.33 99 - 99 - - - - -2 490 397 251 237 144 -5.10 0 - - 99 - 0 - -2 679 670 491 186 177 -9.85 0 - - 0 - 0 99 0002 +3 204 243 1109 903 864 0.11 0 - - 0 - - 99 +3 1110 1335 1523 411 186 -3.86 0 - - 0 - - 99 +1 1435 1438 1590 153 150 3.22 1 1 - - - - 98 0003 -3 1613 1613 261 1350 1350 5.21 99 - - - - - 99 0004 +2 1598 1607 1738 138 129 1.08 99 - 99 - - - - +2 1739 1742 1903 162 159 0.47 0 - 0 - - 99 - +2 1904 1922 2083 177 159 -2.02 0 - 0 - - 99 - 0005 +3 1944 1971 2099 153 126 -0.13 25 - - 25 - 74 - 0006 -3 2222 2207 2070 150 135 -0.92 97 - - - - 2 97 0007 +3 2106 2118 2252 144 132 -0.20 99 - - 99 - 0 - +3 2253 2256 2378 123 120 -9.54 0 1 - 0 98 0 - 0008 -2 2410 2047 1610 798 435 3.91 99 - - - - 99 - +1 2158 2302 2451 291 147 1.44 0 0 - - 99 - - +2 2309 2459 2608 297 147 -2.46 9 - 9 0 90 - - +3 2439 2490 2648 207 156 -8.12 0 - - 0 99 - - -3 2708 2708 2583 123 123 -6.28 0 43 - - 56 - 0 +1 2572 2605 2730 156 123 4.02 1 1 - - 98 - - +2 2834 2861 3022 186 159 -3.85 0 12 0 - 87 - - +1 2782 2785 3042 258 255 1.41 0 0 - 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