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_fragilis.result/NZ_JACFSX0100000111.8459.AOI_01.fna /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_fragilis.result/GLIMMER.icm /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_fragilis.result/NZ_JACFSX0100000111.8459.AOI_01 Sequence file = /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_fragilis.result/NZ_JACFSX0100000111.8459.AOI_01.fna Number of sequences = 1 ICM model file = /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_fragilis.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_JACFSX0100000111.8459.AOI_01 Sequence length = 21128 ----- Start ----- --- Length ---- ----------- Scores ------------ ID Frame of Orf of Gene Stop of Orf of Gene Raw InFrm F1 F2 F3 R1 R2 R3 -2 526 298 170 354 126 -8.43 0 99 - - - 0 - -3 686 626 474 210 150 -2.43 0 99 - - - - 0 0001 +1 1 76 690 687 612 11.19 99 99 - - - - - 0002 -1 705 699 481 222 216 2.05 99 - - - 99 - - -2 913 859 737 174 120 -11.63 0 99 - 0 0 0 - 0003 +1 703 715 1230 525 513 12.24 99 99 - - - - - 0004 +1 1231 1288 1797 564 507 13.34 99 99 - - - - - -1 1800 1749 1456 342 291 3.00 0 99 - - 0 - - 0005 -3 2006 1970 1815 189 153 -7.87 99 - - - - - 99 -1 2301 2259 2080 219 177 -1.73 1 98 - - 1 - - +3 2106 2133 2321 213 186 -6.97 0 95 - 0 - - 4 -3 2498 2300 2115 381 183 -3.33 0 95 - 0 3 - 0 +3 2436 2490 2642 204 150 -7.48 0 99 - 0 - - - 0006 +1 1879 1900 2742 861 840 3.58 99 99 - - - - - 0007 -3 2810 2801 2652 156 147 2.37 99 - - - - - 99 +1 2833 2869 2997 162 126 -12.38 0 0 68 - - 31 - 0008 +2 2798 2819 3055 255 234 8.28 99 - 99 - - 0 - 0009 -2 3160 3124 2765 393 357 2.78 99 - - - - 99 - 0010 -1 3261 3156 3004 255 150 1.08 85 - - - 85 14 - 0011 -1 3642 3510 3262 378 246 0.97 18 81 - - 18 - - -3 3692 3671 3510 180 159 -1.58 0 99 - - - - 0 -3 3980 3893 3771 207 120 -1.32 0 99 - - 0 - 0 -3 4130 4115 3981 147 132 -2.03 0 98 - - 1 - 0 0012 +1 3010 3283 4251 1239 966 4.22 99 99 - - - - - 0013 -1 4317 4311 3724 591 585 2.24 99 - - - 99 - - -3 4610 4511 4386 222 123 -4.56 0 99 - - - 0 0 -1 4782 4770 4426 354 342 -1.45 0 99 - - 0 - - -3 4934 4925 4767 165 156 -4.49 0 99 - - - - 0 -1 5115 4983 4783 330 198 1.85 0 99 - - 0 - - -1 5268 5253 5116 150 135 0.03 0 99 - - 0 - - -3 5468 5465 5202 264 261 -0.16 0 99 - - - - 0 +2 5336 5357 5485 147 126 -11.14 0 99 0 0 0 - - 0014 +1 4252 4264 5511 1257 1245 3.49 99 99 - - - - - 0015 -1 5574 5424 5269 303 153 3.14 51 47 - - 51 - 0 0016 +2 5486 5489 5614 126 123 -0.49 99 - 99 - - - - 0017 -2 5827 5824 5693 132 129 -2.70 82 - - 17 - 82 - -3 5861 5831 5700 159 129 -6.56 0 - - 56 - 43 0 -1 6111 6093 5947 162 144 2.82 3 96 - - 3 - - -3 6188 6176 6015 171 159 0.39 0 99 - - - - 0 +2 6170 6191 6412 240 219 -7.45 0 99 0 - 0 - - +2 6413 6470 6619 204 147 -11.43 0 99 0 0 0 - - -1 6741 6249 6112 627 135 3.18 0 99 - - 0 - - -3 6824 6701 6537 285 162 -5.29 0 99 - - 0 - 0 +3 6666 6672 6887 219 213 -6.68 0 99 - 0 - - - 0018 +1 5893 5944 7023 1128 1077 6.34 99 99 - - - - - +2 6995 7010 7138 141 126 -1.72 0 - 0 99 - - - -2 7699 7678 7493 204 183 -4.12 0 - - 99 - 0 0 -3 7766 7538 7413 351 123 2.11 0 - - 99 - - 0 0019 +3 6999 7038 7790 789 750 3.85 99 - - 99 - - - -3 8054 7928 7767 285 159 0.29 1 98 - - - - 1 -3 8429 8426 8280 147 144 -1.27 0 99 - - 0 - 0 0020 -1 8790 8718 7957 831 759 -0.11 0 99 - - 0 - - 0021 +1 7561 7807 8799 1236 990 5.74 99 99 - - - - - 0022 -3 8873 8873 8649 222 222 -0.68 99 - - - - - 99 0023 +3 8751 8877 9026 273 147 -0.59 95 4 - 95 - 0 - 0024 +1 8848 8866 9048 198 180 -1.94 99 99 - - - - - -2 9175 9013 8870 303 141 -4.76 0 6 - 93 - 0 - +3 9027 9114 9278 249 162 -1.89 0 0 - 0 - - 99 +1 9049 9136 9297 246 159 2.76 0 0 - - - - 99 0025 -3 9311 9293 8898 411 393 10.03 99 - - - - - 99 +1 9493 9493 9702 207 207 0.02 0 0 - - 99 - - +2 9755 9779 9910 153 129 -3.90 0 - 0 - 99 - - +1 9787 9850 9978 189 126 1.92 0 0 - 0 99 - - 0026 -1 10047 9957 9298 747 657 5.98 99 - - - 99 - - +3 9843 9993 10274 429 279 1.35 0 - - 0 - - 99 -2 10678 10669 10496 180 171 -9.43 0 - - 0 - 0 99 +3 10275 10326 10709 432 381 -2.78 0 - - 0 - - 99 -2 11026 10987 10799 225 186 -3.32 0 - - - - 0 99 +2 10886 10997 11140 252 141 -10.03 0 - 0 0 - - 99 +3 10938 10995 11168 228 171 2.77 0 - - 0 - - 99 0027 -3 11189 11138 9990 1197 1146 10.12 99 - - - - - 99 0028 +2 11258 11261 11482 222 219 -0.58 99 - 99 - - - - +2 11483 11717 11845 360 126 -1.62 0 - 0 - - 99 - -1 11958 11874 11746 210 126 -4.82 0 - - - 0 99 - 0029 -2 12265 12253 11279 984 972 9.87 99 - - - - 99 - 0030 +2 11945 12005 12277 330 270 1.28 99 - 99 - - - - -2 12433 12400 12269 162 129 -5.82 0 0 - - 99 0 - +2 12278 12305 12445 165 138 -5.13 0 7 0 - 92 - - -3 12680 12674 12510 168 162 -6.72 0 5 - - 94 - 0 +1 12259 12379 12810 549 429 2.32 0 0 - - 99 - - +2 12704 12710 12871 165 159 -7.65 0 - 0 - 99 - 0 -3 12965 12851 12681 282 168 -12.25 0 - - - 99 - 0 +2 13091 13112 13246 153 132 -3.05 0 0 0 - 99 - - 0031 -1 13332 13323 12250 1080 1071 5.44 99 - - - 99 - - 0032 +1 12811 12931 13356 543 423 0.59 99 99 - - - - - 0033 -2 13453 13453 13304 147 147 1.20 98 - - 1 - 98 - 0034 -3 14006 13994 13353 651 639 4.82 99 - - 0 - - 99 +1 13798 13873 14010 210 135 3.20 4 4 - 86 - - 9 0035 +3 13203 13794 14123 918 327 0.40 99 - - 99 - - - 0036 +2 14069 14093 14353 282 258 0.99 99 - 99 - - - - 0037 -1 14382 14367 14206 174 159 2.87 99 0 - - 99 - - -2 15028 14833 14555 471 276 5.57 0 - 99 - - 0 - 0038 +2 14549 14561 15127 576 564 13.34 99 - 99 - - - - 0039 -3 15236 15218 15060 174 156 -1.99 99 - - - - - 99 0040 +2 15128 15185 15313 183 126 -7.50 12 87 12 - - - - 0041 -1 15396 15348 15202 192 144 -3.37 68 31 - - 68 - - 0042 +1 15097 15289 15468 369 177 -4.59 99 99 - - - - - 0043 -3 15566 15563 15342 222 219 -2.28 99 - - - - - 99 -1 15972 15951 15799 171 150 -2.32 0 - 99 - 0 0 - -2 16087 15961 15701 384 258 2.07 0 - 99 - - 0 - -1 16263 16260 16081 180 177 -1.85 0 - 99 - 0 - - +3 16092 16113 16289 195 174 -3.22 0 - 99 0 - 0 - -2 16321 16300 16088 231 210 3.65 0 - 99 - - 0 - +1 16216 16357 16545 327 186 -6.39 0 0 99 0 - - - 0044 +2 15560 15581 16573 1011 990 8.52 99 - 99 - - - - 0045 +3 16326 16389 16619 291 228 -2.42 99 - - 99 - - - 0046 +1 16570 16576 16713 141 135 -7.06 99 99 - - - - - -3 16844 16844 16638 204 204 -12.26 0 - 99 - 0 - 0 -1 16959 16743 16609 348 132 -0.44 0 - 99 - 0 - - 0047 +2 16613 16616 17308 693 690 3.92 99 - 99 - - - - -2 17452 17254 17105 345 147 -5.08 0 - 99 - - 0 - 0048 +3 17235 17259 17675 438 414 1.27 99 - - 99 - - - -2 17800 17767 17621 177 144 -4.68 0 - - - - 0 99 +3 17703 17742 17906 201 162 -0.55 0 - - 0 - - 99 -2 18049 18046 17903 144 141 -6.54 0 - - 0 - 0 99 +1 17920 17923 18108 186 183 -3.78 0 0 - - - - 99 0049 -3 18119 18101 17337 780 762 3.51 99 - - - - - 99 0050 -3 18491 18482 18147 342 333 13.40 99 - - 0 - - 99 0051 -3 18674 18623 18492 180 129 -1.72 99 - - - - - 99 +2 18509 18566 18691 180 123 2.07 0 0 0 - 99 - - +1 18532 18655 18777 243 120 -3.81 0 0 - - 99 - - +2 18692 18731 18889 195 156 -2.35 0 - 0 - 99 - - +2 18890 18902 19063 171 159 -1.70 0 0 0 - 99 - - -3 19709 19613 19491 216 120 -5.15 0 0 - - 99 - 0 +3 19575 19599 19721 144 120 -3.83 0 0 - 0 99 - - +2 19664 19676 19837 171 159 -1.21 0 0 0 - 99 - - 0052 -1 19953 19941 18541 1410 1398 8.11 99 - - - 99 - - 0053 +1 18778 19834 20121 1341 285 2.70 99 99 - - - - - +2 20444 20600 20797 351 195 -2.87 0 0 0 - 99 - - -3 20975 20888 20754 219 132 -0.98 0 0 - - 99 - 0 +1 20521 20821 20979 456 156 -0.83 0 0 - - 99 - 0 +2 20867 20960 21094 225 132 -9.64 0 - 0 - 99 - - 0054 -1 21126 21087 20164 960 921 12.20 99 - - - 99 - -