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_Bacteroidaceae//Bacteroides_plebeius.result/NZ_QRML010000031.907.AOI_01.fna /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_plebeius.result/GLIMMER.icm /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_plebeius.result/NZ_QRML010000031.907.AOI_01 Sequence file = /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_plebeius.result/NZ_QRML010000031.907.AOI_01.fna Number of sequences = 1 ICM model file = /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_plebeius.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_QRML010000031.907.AOI_01 Sequence length = 20252 ----- 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 5 178 174 171 -1.38 99 - 99 - - - - -1 477 306 157 318 147 -2.99 0 99 - - 0 - - +2 392 416 568 174 150 -14.60 0 99 0 - - - - -3 686 656 507 177 147 -5.05 0 99 - - - - 0 +3 729 753 893 162 138 -7.25 0 99 - 0 0 - - -3 944 905 762 180 141 -6.18 0 99 - - 0 - 0 0002 -1 1374 1359 544 828 813 0.99 0 99 - - 0 - - -1 1608 1503 1375 231 126 -6.34 0 99 - 0 0 - - +2 1418 1439 1612 192 171 -3.64 0 99 0 0 0 - - -3 1712 1673 1539 171 132 1.99 0 99 - 0 - - 0 -2 1942 1897 1772 168 123 -11.13 0 99 - - 0 0 - 0003 +1 154 175 2079 1923 1902 11.45 99 99 - - - - - -1 2145 1920 1768 375 150 0.48 0 99 - - 0 - - +3 2160 2352 2600 438 246 1.13 0 - - 0 - - 99 0004 -3 2633 2627 2169 462 456 7.96 99 - - - - - 99 -1 2733 2724 2593 138 129 -5.41 0 99 - - 0 - - +1 2569 2737 2877 306 138 -11.38 0 0 0 - - 99 - +2 2648 2822 3025 375 201 -1.26 0 - 0 - - 99 - +2 3101 3170 3304 201 132 -1.77 0 - 0 0 - 99 - +3 3054 3108 3314 258 204 -1.81 0 - - 0 - 99 - 0005 -2 3325 3295 2630 693 663 9.57 99 - - - - 99 - +1 3322 3337 3576 252 237 -1.61 0 0 0 - 99 - - +2 3305 3428 3838 531 408 3.45 0 - 0 - 99 - - 0006 -1 3999 3987 3301 696 684 11.21 99 - - - 99 - - 0007 +2 3839 3854 4015 174 159 4.41 99 - 99 - - - - -3 4271 4268 4122 147 144 4.44 1 0 - - 98 - 1 +1 4117 4144 4275 156 129 2.45 0 0 - - 99 - 0 +1 4360 4429 4623 261 192 0.59 0 0 - - 99 - - +3 4611 4659 4805 192 144 -4.26 0 - - 0 99 - - +1 4678 4867 5058 378 189 -2.26 0 0 0 - 99 - - +2 4748 4952 5131 381 177 -0.61 0 - 0 - 99 - - -3 5162 5138 4971 189 165 -3.11 0 - - - 99 - 0 +3 5034 5070 5204 168 132 -3.18 0 0 - 0 99 - - +2 5132 5144 5320 186 174 -3.75 0 0 0 - 99 - - -2 5470 5458 5324 144 132 -5.34 0 0 - - 99 0 - +1 5059 5299 5493 432 192 -1.05 0 0 - - 99 - - 0008 -1 5520 5448 4117 1401 1329 7.24 99 - - - 99 - - 0009 +3 5646 5649 5774 126 123 -0.49 23 76 - 23 - - - 0010 -2 6121 6115 5981 138 132 1.35 31 - - - 68 31 - 0011 -1 6207 6117 5929 276 186 3.25 99 - - - 99 - - -1 6369 6354 6208 159 144 0.89 0 99 - - 0 - - -2 6631 6628 6404 225 222 -0.75 0 99 - - - 0 - -1 6645 6615 6484 159 129 3.28 0 99 - - 0 0 - 0012 +1 6154 6199 6834 678 633 7.13 99 99 - - - - - -2 7171 7003 6854 315 147 3.17 0 - 99 - - 0 - +3 6975 7032 7187 210 153 -7.14 0 - 99 0 - - - -1 7365 7356 7063 300 291 1.30 0 - 99 - 0 - - -3 7523 7523 7386 135 135 -4.68 0 - 99 - - 0 0 +3 7434 7437 7619 183 180 -0.51 0 0 99 0 - - - +1 7420 7486 7626 204 138 -5.79 0 0 99 - - - - 0013 +2 6848 6866 7723 873 855 9.14 99 - 99 - - - - -3 7856 7652 7524 330 126 -5.44 0 - 99 - - - 0 +3 7770 7866 8006 234 138 -7.12 0 - 99 0 - 0 - -1 8163 8157 8029 132 126 2.15 0 - 99 - 0 0 - -2 8209 8167 7754 453 411 3.64 0 - 99 - - 0 - -2 8491 8491 8342 147 147 1.61 0 - 99 - - 0 - 0014 +2 7724 7736 8776 1050 1038 12.09 99 - 99 - - - - 0015 +1 8572 8650 8871 297 219 -2.52 99 99 - - - - - -2 9052 9040 8888 162 150 0.62 0 - - 99 - 0 - +2 8906 8936 9151 243 213 -10.09 0 - 0 99 - - 0 -3 9152 9116 8910 240 204 -6.74 0 - 0 99 - - 0 -2 9247 9217 9053 192 162 -3.01 0 - - 99 - 0 - 0016 +3 8796 8811 9458 660 645 11.16 99 - - 99 - - - -3 9506 9365 9153 351 210 -3.33 0 - - 99 - - 0 0017 +1 9442 9469 9633 189 162 -5.10 99 99 - - - - - +2 9536 9551 9682 144 129 -0.18 0 - 0 0 99 0 - 0018 -1 9885 9870 9523 360 345 8.89 99 - - - 99 - - +1 10015 10138 10329 312 189 0.20 0 0 - - 99 - - +2 10274 10289 10420 144 129 3.05 0 - 0 0 99 - - +3 10209 10326 10463 252 135 -8.22 0 - - 0 99 - 0 -3 10487 10439 10314 171 123 -10.02 0 - - 0 99 - 0 +2 10571 10637 10759 186 120 1.02 0 - 0 - 99 0 0 -3 10769 10751 10602 165 147 -4.30 0 - 0 - 99 - 0 0019 -1 10872 10851 9886 984 963 10.77 99 - - - 99 - - 0020 -3 10931 10916 10770 159 144 0.84 99 0 - 0 - - 99 0021 +1 10651 10852 11001 348 147 -2.58 99 99 - - - - - -3 11288 11276 11151 135 123 -11.60 0 - 99 - - - 0 +3 11340 11361 11585 243 222 -1.13 0 - 99 0 - 0 - -1 11592 11589 11422 168 165 -1.30 0 - 99 - 0 0 - -1 11742 11742 11593 147 147 -2.91 0 - 99 - 0 0 - -1 11886 11880 11743 141 135 -4.93 0 - 99 - 0 0 - -2 11896 11452 11273 621 177 2.40 0 - 99 - - 0 - +3 11844 11844 12011 165 165 -7.00 0 - 99 0 - - - -3 12173 12107 11985 186 120 -5.58 0 - 99 - - - 0 -1 12381 12318 12049 330 267 1.32 0 - 99 - 0 - - -2 12712 12610 12092 618 516 3.36 0 - 99 - - 0 - +1 12556 12631 12756 198 123 -15.26 0 0 99 - - - 0 -3 12890 12761 12549 339 210 -4.47 0 - 99 - - - 0 +3 12861 12882 13022 159 138 -2.14 0 - 99 0 0 - - -2 13138 13114 12962 174 150 -0.05 0 - 99 - 0 0 - -1 13467 13368 12778 687 588 1.39 0 - 99 - 0 - - -2 13588 13525 13139 447 384 4.01 0 - 99 - - 0 - 0022 +2 10964 10985 13603 2637 2616 8.52 99 - 99 - - - - 0023 -1 13824 13818 13627 195 189 1.75 99 - - - 99 - - 0024 -2 13969 13942 13664 303 276 -1.80 99 - - - - 99 - -1 14130 14127 13984 144 141 0.27 0 - 99 0 0 0 - +3 13974 13992 14138 162 144 -12.86 0 - 99 0 - 0 - +1 14026 14041 14190 162 147 -10.82 0 0 99 - - - - +3 14280 14301 14429 147 126 -6.38 0 0 99 0 - 0 - -2 14494 14404 14276 216 126 2.97 0 0 99 0 - 0 - -1 14607 14589 14467 138 120 3.96 0 0 99 - 0 - - +1 14269 14617 14850 579 231 -5.52 0 0 99 - - - - -1 14979 14853 14728 249 123 -3.14 0 - 99 - 0 - - 0025 +2 13676 13724 15088 1410 1362 9.11 99 - 99 - - - - +1 14851 14998 15132 279 132 0.42 0 0 - - 99 - - 0026 -1 15135 15129 14980 153 147 5.43 99 0 - - 99 - - +2 15176 15227 15400 222 171 -4.42 0 - 0 - - 99 - +2 15401 15431 15553 150 120 2.43 0 - 0 - - 99 - -3 15725 15659 15444 279 213 -1.38 0 - - - - 99 0 +2 15704 15875 16066 360 189 1.81 0 - 0 - - 99 - +1 15931 15982 16110 177 126 0.03 0 0 - - - 99 - 0027 -2 16120 16102 15104 1014 996 9.34 99 - - - - 99 - -3 16328 16319 16056 270 261 1.89 0 - - 99 - - 0 +1 16468 16468 16593 123 123 -4.37 0 0 - 99 - - 0 -1 16818 16668 16525 291 141 -9.88 0 - - 99 0 - - +1 16855 16879 17031 174 150 0.01 0 0 - 99 - - - -2 17356 17176 17051 303 123 -3.58 0 - - 99 - 0 - -3 17396 17396 17256 138 138 -4.40 0 - - 99 - - 0 0028 +3 16041 16197 17426 1383 1227 11.43 99 - - 99 - - - -2 17761 17755 17621 138 132 -10.40 0 99 - - 0 0 - -1 17844 17682 17485 357 195 2.65 0 99 - - 0 - - +2 17741 17759 17917 174 156 -9.59 0 99 0 - - - 0 -3 18185 17819 17664 519 153 -4.35 0 99 - - 0 - 0 -1 18315 18309 18133 180 174 2.04 0 99 - - 0 - - 0029 +1 17419 17455 18345 924 888 12.39 99 99 - - - - - 0030 -3 18506 18413 18186 318 225 1.82 99 - - - - - 99 -3 18860 18809 18522 336 285 1.59 0 - - 99 - - 0 -1 18909 18864 18736 171 126 -9.20 0 - 0 99 0 - 0 +2 18722 18794 18991 267 195 -9.35 0 - 0 99 - - - -2 19318 19225 18974 342 249 -2.62 0 - - 99 - 0 - +2 19349 19496 19675 324 177 -10.10 0 - 0 99 - - 0 -3 19787 19658 19491 294 165 -2.10 0 - 0 99 - - 0 0031 +3 18258 18360 19850 1590 1488 10.56 99 - - 99 - - - -2 20194 20161 19826 366 333 2.43 0 0 99 - - 0 - -1 20250 20067 19882 366 183 -0.61 0 0 99 - 0 0 -