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_WCIE010000021.8187.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_WCIE010000021.8187.AOI_01 Sequence file = /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_fragilis.result/NZ_WCIE010000021.8187.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_WCIE010000021.8187.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 -1 528 300 172 354 126 -8.43 0 - - 99 0 - - -2 688 628 476 210 150 -0.92 0 - - 99 - 0 - 0001 +3 3 78 692 687 612 11.86 99 - - 99 - - - 0002 -3 707 701 483 222 216 1.92 99 - - - - - 99 -1 915 861 739 174 120 -10.55 0 - 0 99 0 - 0 0003 +3 705 717 1232 525 513 13.31 99 - - 99 - - - 0004 +3 1233 1290 1799 564 507 13.41 99 - - 99 - - - -3 1802 1751 1458 342 291 1.90 0 - - 99 - - 0 0005 -2 2008 1972 1817 189 153 -8.53 99 - - - - 99 - +2 2108 2135 2323 213 186 -7.58 0 - 0 99 - 0 - -2 2500 2302 2117 381 183 -2.59 0 - 0 99 - 0 - +2 2438 2492 2644 204 150 -8.04 0 - 0 99 - - - 0006 +3 1881 1902 2744 861 840 8.73 99 - - 99 - - - 0007 -2 2812 2803 2654 156 147 2.93 99 - - - - 99 - +3 2835 2871 2999 162 126 -11.37 0 99 - 0 0 - - 0008 +1 2800 2821 3057 255 234 8.46 99 99 - - 0 - - 0009 -3 3263 3158 3006 255 150 0.24 99 - - - 0 - 99 -3 3644 3512 3264 378 246 0.82 0 - - 99 - - 0 -2 3694 3673 3512 180 159 -0.80 0 - - 99 - 0 - -2 3982 3898 3773 207 123 -2.40 0 - - 99 - 0 0 -2 4132 4117 3983 147 132 -2.56 0 - - 99 - 0 0 0010 +3 3012 3171 4253 1239 1080 5.58 99 - - 99 - - - 0011 -3 4319 4313 3726 591 585 0.66 99 - - - - - 99 -2 4612 4513 4388 222 123 -3.22 0 - - 99 0 0 - -2 4936 4927 4769 165 156 -3.30 0 - - 99 - 0 - -3 5117 4985 4785 330 198 1.56 0 - - 99 - - 0 -3 5270 5255 5118 150 135 -0.83 0 - - 99 - - 0 -2 5470 5467 5204 264 261 -0.30 0 - - 99 - 0 - +1 5338 5359 5487 147 126 -9.35 0 0 0 99 - - 0 0012 +3 4254 4266 5513 1257 1245 4.45 99 - - 99 - - - -3 5528 5426 5271 255 153 0.89 2 - - 97 - 0 2 0013 -2 5866 5824 5693 171 129 -3.34 71 - - 28 - 71 - -1 6111 6093 5947 162 144 1.67 0 99 - - 0 - - -3 6188 6176 6015 171 159 1.03 0 99 - - - - 0 +2 6170 6206 6412 240 204 -7.83 0 99 0 - 0 - - +2 6413 6470 6619 204 147 -12.02 0 99 0 0 0 - - -1 6741 6249 6112 627 135 1.72 0 99 - - 0 - - -3 6824 6701 6537 285 162 -5.55 0 99 - - 0 - 0 +3 6666 6672 6887 219 213 -6.14 0 99 - 0 - - - 0014 +1 5893 5944 7023 1128 1077 7.25 99 99 - - - - - +2 6995 7010 7138 141 126 -2.97 0 - 0 99 - - - -2 7699 7678 7493 204 183 -3.85 0 - - 99 - 0 0 -3 7766 7538 7413 351 123 -1.92 0 - 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- -3 11027 10928 10800 225 126 -2.59 0 - - - 99 - 0 +3 10887 10998 11141 252 141 -7.93 0 0 - 0 99 - - +1 10939 10996 11169 228 171 2.12 0 0 - - 99 - - 0023 -1 11190 11139 9991 1197 1146 10.49 99 - - - 99 - - 0024 +3 11259 11262 11483 222 219 -0.23 99 - - 99 - - - +3 11484 11718 11846 360 126 -1.26 0 - - 0 - - 99 -2 11959 11872 11747 210 123 -4.81 0 - - - - 0 99 0025 -3 12266 12254 11280 984 972 10.78 99 - - - - - 99 0026 +3 11946 12105 12278 330 171 0.51 99 - - 99 - - - -3 12434 12401 12270 162 129 -4.94 0 - 0 - - 99 0 +3 12279 12306 12446 165 138 -4.19 0 - 22 0 - 77 - -1 12681 12675 12511 168 162 -6.91 0 - 0 - 0 99 - +2 12260 12380 12811 549 429 2.40 0 - 0 - - 99 - +3 12705 12711 12872 165 159 -10.69 0 - - 0 0 99 - -1 12966 12852 12682 282 168 -10.94 0 - - - 0 99 - +3 13092 13113 13247 153 132 -0.61 0 - 0 0 - 99 - 0027 -2 13333 13324 12251 1080 1071 6.00 99 - - - - 99 - 0028 +2 12812 13001 13357 543 354 -0.16 99 - 99 - - - - 0029 -3 13454 13454 13305 147 147 -0.41 98 1 - - - - 98 0030 -1 14007 13995 13354 651 639 8.69 99 0 - 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- - - 0 0041 +1 16618 16621 17313 693 690 9.15 99 99 - - - - - -1 17361 17259 17110 249 147 -6.92 0 99 - - 0 - - -2 17458 17458 17306 150 150 -4.41 0 - - 99 - 0 - +3 17298 17349 17681 381 330 1.58 0 - - 0 - - 99 -2 17806 17773 17627 177 144 -2.60 0 - - - - 0 99 +3 17709 17748 17912 201 162 -1.14 0 - - 0 - - 99 -2 18055 18052 17909 144 141 -8.09 0 - - 0 - 0 99 +1 17926 17929 18114 186 183 -3.04 0 0 - - - - 99 0042 -3 18125 18107 17343 780 762 8.21 99 - - - - - 99 0043 -3 18497 18488 18153 342 333 9.76 99 - - 0 - - 99 0044 -3 18680 18629 18498 180 129 -1.47 99 - - - - - 99 +2 18515 18572 18697 180 123 -0.59 0 0 0 - 99 - - +1 18538 18661 18783 243 120 -2.44 0 0 - - 99 - - +2 18698 18737 18895 195 156 -2.21 0 - 0 - 99 - - +2 18896 18908 19069 171 159 -1.34 0 0 0 - 99 - - -3 19715 19619 19497 216 120 -4.19 0 0 - - 99 - 0 +3 19581 19605 19727 144 120 -2.69 0 0 - 0 99 - - +2 19670 19682 19843 171 159 -1.45 0 0 0 - 99 - - 0045 -1 19959 19947 18547 1410 1398 8.24 99 - - - 99 - - 0046 +1 18784 19840 20127 1341 285 2.32 99 99 - - - - - +2 20450 20606 20803 351 195 -2.87 0 0 0 - 99 - - -3 20981 20894 20760 219 132 -2.51 0 0 - - 99 - 0 +1 20527 20827 20985 456 156 -0.12 0 0 - - 99 - 0 +2 20873 20966 21100 225 132 -8.19 0 - 0 - 99 - - 0047 -1 21126 21093 20170 954 921 11.95 99 - - - 99 - -