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_ASYN010001611.1026.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_ASYN010001611.1026.AOI_01 Sequence file = /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Porphyromonas_gingivalis.result/NZ_ASYN010001611.1026.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_ASYN010001611.1026.AOI_01 Sequence length = 11667 ----- Start ----- --- Length ---- ----------- Scores ------------ ID Frame of Orf of Gene Stop of Orf of Gene Raw InFrm F1 F2 F3 R1 R2 R3 -2 244 154 8 234 144 -7.59 0 - - 99 - 0 - +3 12 123 248 234 123 0.11 6 - - 6 - 0 93 -1 300 273 148 150 123 -7.18 0 - - - 0 - 99 0001 -3 323 197 39 282 156 3.17 99 - - 0 - 0 99 0002 +1 163 181 327 162 144 -0.72 48 48 - - - - 51 +2 584 644 802 216 156 -2.86 0 - 0 0 - - 99 0003 +3 444 516 854 408 336 2.37 99 - - 99 - - - +2 803 857 1036 231 177 -7.07 0 - 0 - - - 99 +1 1012 1153 1335 321 180 -2.46 0 0 - - 0 - 99 -1 1341 1287 1066 273 219 -4.20 0 0 - - 0 - 99 -2 1441 1441 1316 123 123 -5.38 0 - - 2 - 0 97 +1 1495 1519 1644 147 123 0.46 0 0 0 0 0 - 99 +3 1446 1503 1673 225 168 0.84 0 - - 0 - - 99 0004 -3 1691 1691 525 1164 1164 7.42 99 - - - - - 99 +1 1645 1738 1872 225 132 -0.19 0 0 - 0 0 - 99 +1 1873 1990 2274 399 282 -2.47 0 0 - 0 - - 99 -1 2379 2343 2020 357 321 -5.40 0 - - 0 0 - 99 0005 -3 2714 2705 1710 1002 993 7.51 99 - - 0 - - 99 0006 +3 1701 1713 2900 1197 1185 0.94 99 - - 99 - - - +1 2779 2830 2964 183 132 -1.12 9 9 - - 0 - 90 -1 3282 3252 3013 267 237 -6.10 0 - - 0 0 - 99 -2 3361 3334 3206 153 126 -7.03 0 - - 0 - 0 99 +1 3292 3298 3426 132 126 -6.07 0 0 0 0 - - 99 +2 3221 3257 3442 219 183 -6.42 0 - 0 0 - - 99 +3 2901 2991 3485 582 492 0.36 0 - - 0 - - 99 +1 3460 3499 3624 162 123 -5.03 0 0 - 0 - - 99 +3 3486 3678 3845 357 165 2.29 0 0 - 0 0 - 99 +1 3625 3724 3876 249 150 -4.23 0 0 - - 0 - 99 +2 3740 3740 3892 150 150 -4.04 0 - 0 - 0 - 99 0007 -3 3986 3890 2769 1215 1119 3.72 99 - - - - - 99 +2 4019 4175 4339 318 162 -2.15 0 0 0 - 99 - - +3 4278 4293 4433 153 138 -6.67 0 0 - 0 99 - - +1 4132 4150 4494 360 342 0.76 0 0 - - 99 - - +3 4488 4578 4703 213 123 -3.55 1 - 0 1 98 - - 0008 -1 4950 4761 3904 1044 855 2.27 99 - - - 99 - - 0009 +2 4544 4736 4975 429 237 -1.61 99 - 99 - - - 0 0010 -3 5156 5042 4731 423 309 -3.85 99 - - - - - 99 +3 5208 5427 5648 438 219 -5.63 0 99 - 0 0 - - 0011 +1 5074 5110 5712 636 600 5.59 99 99 - - 0 - - -1 5805 5703 5089 714 612 3.04 0 99 - - 0 - - +2 5579 5672 5902 321 228 -7.64 0 - 0 99 - - - -2 6187 6148 6026 159 120 -3.12 0 - 0 99 - 0 0 0012 +3 5649 5709 6260 609 549 7.85 99 - - 99 - - - -3 6329 6206 5967 360 237 3.72 0 - 0 99 - - 0 -1 6792 6684 6433 357 249 2.04 0 99 - - 0 - - -3 6884 6857 6549 333 306 -1.51 0 99 - - - - 0 +3 6660 6702 6992 330 288 -8.21 0 99 - 0 - - - -2 7285 7003 6854 429 147 -7.59 0 33 - - 66 0 - -3 7340 7340 7188 150 150 -4.41 0 99 - - 0 - 0 0013 +1 6313 6319 7533 1218 1212 4.91 99 99 - - - - - -1 7557 7503 6793 762 708 2.52 0 99 - - 0 - - -1 7902 7830 7708 192 120 -1.43 0 0 97 - 0 2 - +1 7681 7747 7968 285 219 -4.69 0 0 99 - - 0 - -2 8047 7897 7646 399 249 3.43 0 - 99 - - 0 - 0014 +2 7523 7544 8149 624 603 6.51 99 - 99 - - - - +1 8005 8023 8172 165 147 -4.96 7 7 - 92 - - - -2 8236 8197 8048 186 147 -3.27 9 - - 90 - 9 - -3 8354 8351 8166 186 183 1.32 0 - 0 99 - - 0 0015 +3 8001 8175 8402 399 225 2.14 99 - 0 99 - - - 0016 -1 8433 8421 8293 138 126 -3.18 50 - 30 - 50 19 - 0017 -2 8554 8539 8279 273 258 0.79 16 - 83 - - 16 - -1 8739 8733 8572 165 159 -2.73 0 0 94 - 0 5 - -3 8750 8723 8592 156 129 -7.66 0 0 74 - 0 25 0 +1 8545 8671 8829 282 156 -8.18 0 0 99 - - 0 - 0018 +2 8150 8399 8851 699 450 3.59 99 - 99 - - - - 0019 -2 8863 8698 8555 306 141 1.71 33 0 66 - - 33 - 0020 -1 8892 8892 8758 132 132 -1.61 99 - - - 99 - 0 +1 8989 9004 9171 180 165 -4.52 0 0 0 22 - - 77 +2 8852 8993 9271 417 276 -8.97 0 - 0 5 - - 94 +1 9172 9244 9366 192 120 -3.97 0 0 - 76 - - 23 +2 9296 9347 9580 282 231 -6.24 0 - 0 98 - - 1 +1 9424 9505 9657 231 150 -6.47 0 0 - 94 - - 5 +2 9581 9602 9775 192 171 -6.25 0 - 0 99 - - 0 0021 +3 8823 8874 9797 972 921 2.89 99 - - 99 - - 0 0022 -3 9893 9473 8751 1140 720 1.34 99 - - - - - 99 0023 +2 9776 9833 9955 177 120 -2.02 17 72 17 1 8 - - -1 10080 9897 9760 318 135 -2.33 11 43 - - 11 - 45 +3 9798 10011 10154 354 141 -6.73 0 93 0 0 - 6 - -2 10171 10084 9944 225 138 -7.60 0 72 - 0 27 0 - -3 10292 10289 10161 129 126 -3.33 0 99 - - - - 0 0024 +1 9658 10018 10341 681 321 1.72 99 99 - - - - - 0025 -1 10458 10440 10261 195 177 -4.16 99 - - - 99 - - 0026 -2 10567 10486 10331 234 153 -1.52 98 - - 1 - 98 - +2 10724 10733 10867 141 132 -6.40 0 - 0 - 99 - - +1 10759 10858 10995 234 135 2.98 1 1 - - 98 - 0 -3 11024 10976 10812 210 162 -4.89 0 12 - - 87 - 0 0027 -1 11214 11202 10603 609 597 4.44 99 - - - 99 - - +1 11116 11242 11400 282 156 -4.68 0 0 - - - 99 - +3 11289 11295 11423 132 126 -3.82 0 - - 0 - 99 - 0028 -2 11665 11524 11186 477 336 1.51 99 - - - - 99 -