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_vulgatus.result/NZ_WCIG010000011.5898.AOI_01.fna /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_vulgatus.result/GLIMMER.icm /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_vulgatus.result/NZ_WCIG010000011.5898.AOI_01 Sequence file = /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_vulgatus.result/NZ_WCIG010000011.5898.AOI_01.fna Number of sequences = 1 ICM model file = /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_vulgatus.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_WCIG010000011.5898.AOI_01 Sequence length = 21143 ----- Start ----- --- Length ---- ----------- Scores ------------ ID Frame of Orf of Gene Stop of Orf of Gene Raw InFrm F1 F2 F3 R1 R2 R3 -1 465 423 226 237 195 -1.00 0 99 - - 0 - - 0001 +1 1 22 1092 1089 1068 10.38 99 99 - - - - - +2 1403 1463 1588 183 123 -6.50 0 99 0 - 0 - - -3 1658 1658 1530 126 126 -0.77 0 99 - - - - 0 -3 2090 2078 1938 150 138 -1.81 0 99 - - - - 0 +3 1995 2004 2129 132 123 -6.26 0 99 - 0 - - - -1 2421 2409 2257 162 150 1.19 0 99 0 - 0 - - +3 2280 2289 2453 171 162 -8.83 0 99 0 0 - - - +2 2243 2243 2566 321 321 -1.20 0 99 0 - - - - +3 2646 2688 2828 180 138 -6.31 0 99 - 0 - - - -3 3068 2990 2844 222 144 -1.81 0 99 - - - - 0 +2 3164 3176 3310 144 132 -7.73 0 99 0 - - - - -3 3323 3323 3180 141 141 -0.21 0 99 - - - - 0 -1 3333 3318 3193 138 123 0.13 0 99 - - 0 - 0 -3 3707 3545 3423 282 120 0.88 0 99 - - - - 0 -3 3899 3893 3708 189 183 0.41 0 99 - - 0 - 0 -1 3969 3906 3676 291 228 2.59 0 99 - - 0 - - -3 4121 4064 3921 198 141 0.37 0 99 - - - - 0 -1 4266 4194 4021 243 171 -0.07 0 99 - - 0 - - +2 4088 4112 4270 180 156 -6.40 0 99 0 - 0 - - -1 4395 4392 4267 126 123 0.49 0 99 - - 0 - 0 -3 4430 4334 4212 216 120 0.89 0 99 - 0 - - 0 -2 4459 4441 4289 168 150 -8.40 0 99 - - - 0 - -1 4572 4548 4399 171 147 -1.50 0 99 - - 0 - - -3 4976 4973 4851 123 120 6.63 0 99 - - - - 0 -3 5153 5099 4977 174 120 2.15 0 99 - - 0 - 0 0002 +1 1225 1228 5160 3933 3930 10.76 99 99 - - - - - -1 5178 5106 4933 243 171 -2.10 0 99 - - 0 - - 0003 -3 5297 5297 5163 132 132 5.57 99 - - - - - 99 -1 5667 5604 5452 213 150 -2.90 0 - 99 - 0 - - 0004 +2 5408 5417 5671 261 252 5.63 99 - 99 - - - - 0005 -3 5786 5777 5601 183 174 -0.41 99 - - - - - 99 +3 5853 5901 6044 189 141 5.06 0 - 0 0 - 99 - 0006 +2 5675 5747 6136 459 387 -1.99 99 - 99 - - - - +3 6066 6072 6275 207 201 0.87 0 - - 0 - 99 - +3 6276 6291 6428 150 135 -1.84 0 - 0 0 - 99 - +2 6137 6281 6484 345 201 -0.28 0 - 0 - - 99 - -3 6605 6554 6432 171 120 -5.86 0 0 - - - 99 0 +3 6546 6609 6737 189 126 -2.74 0 - 0 0 - 99 - -1 6912 6813 6658 252 153 -8.20 0 0 - - 0 99 - +2 6845 6866 7057 210 189 -1.64 0 - 0 - - 99 - 0007 -2 7129 7117 5771 1356 1344 8.56 99 - - - - 99 - 0008 +3 6981 7017 7148 165 129 -6.16 15 84 - 15 - - - 0009 -3 7370 7346 7140 228 204 4.28 99 - - - - - 99 -2 7486 7474 7343 141 129 -9.50 0 99 - - 0 0 - -3 7781 7739 7581 198 156 0.42 0 99 - - - - 0 0010 +1 7246 7267 7908 660 639 11.32 99 99 - - - - - 0011 -1 8040 7917 7678 360 237 -1.23 99 - - - 99 - - -2 8080 7963 7802 276 159 -12.41 0 - - - 99 0 - -3 8102 8033 7911 189 120 -3.56 0 99 - - 0 0 0 -1 8406 8310 8041 363 267 -1.80 0 99 - - 0 - - -3 8474 8456 8325 147 129 -11.00 0 99 - - - - 0 -3 8651 8648 8493 156 153 -8.37 0 99 - - 0 0 0 -1 8793 8604 8434 357 168 -2.74 0 99 - - 0 0 - -3 8972 8963 8805 165 156 -4.68 0 99 - - - - 0 0012 +1 7915 7921 9000 1083 1077 11.44 99 99 - - - - - -3 9290 9245 9105 183 138 -0.13 0 - - 99 - - 0 -2 9616 9478 9302 312 174 -0.05 0 - - 99 - 0 - -3 9710 9533 9396 312 135 -0.09 0 - - 99 - 0 0 +1 9667 9682 9849 180 165 -12.05 0 0 - 99 - - - -2 9967 9952 9821 144 129 2.68 0 - - 99 - 0 0 0013 +3 8985 8997 9971 984 972 12.21 99 - - 99 - - - 0014 -3 9983 9980 9711 270 267 -1.33 99 - - - - - 99 -2 10285 10243 10112 171 129 -4.86 0 99 - 0 - 0 - +3 10083 10158 10304 219 144 -5.10 0 99 - 0 - - - -3 10676 10673 10551 123 120 1.16 0 99 - - - - 0 -3 11093 11075 10953 138 120 -4.99 0 99 - - 0 - 0 0015 +1 9997 10000 11157 1158 1155 11.94 99 99 - - - - - -1 11163 11097 10666 495 429 0.80 0 99 - - 0 - - -3 11435 11414 11292 141 120 -8.40 0 - 99 - 0 - 0 -1 11490 11421 11281 207 138 -2.91 0 - 99 - 0 - - -2 11611 11575 11387 222 186 -4.82 0 - 99 - - 0 - +3 11703 11712 11843 138 129 -5.69 0 - 99 0 - 0 - 0016 +2 11141 11180 11866 723 684 11.20 99 - 99 - - - - 0017 -2 11878 11869 11693 183 174 3.93 99 - - - - 99 - -3 12143 12113 11910 231 201 2.26 0 99 - - - - 0 -1 12270 12147 11947 321 198 4.81 0 99 - - 0 - 0 0018 +1 11806 11896 12294 486 396 8.93 99 99 - - - - - 0019 +2 12461 12461 12595 132 132 -7.76 99 - 99 - - - - -3 12956 12932 12783 171 147 -3.35 0 - 0 - - 99 0 +2 12713 13208 13372 657 162 0.16 0 - 0 - - 99 - 0020 -2 13675 13648 12683 990 963 11.04 99 - - - - 99 - 0021 +2 13373 13541 13699 324 156 1.22 99 - 99 - - - - 0022 +3 13569 13578 13727 156 147 -2.59 99 - - 99 - - - +1 13696 13705 13830 132 123 -3.35 0 0 - - - - 99 -1 14064 14061 13900 162 159 -2.51 0 - - 0 0 - 99 +1 14077 14113 14244 165 129 -5.05 0 0 - 0 - - 99 -2 14305 14302 14147 156 153 -16.42 0 - - 0 - 0 99 0023 +3 13728 13746 14501 771 753 -2.07 0 - - 0 - - 99 -1 14553 14529 14380 171 147 -6.49 0 - - - 0 - 99 +1 14572 14575 14706 132 129 -0.26 3 3 0 0 0 - 96 -2 14908 14842 14720 186 120 -13.15 0 0 - 0 - 0 99 0024 -3 14933 14921 13668 1263 1251 5.19 99 - - - - - 99 +3 14502 14703 14993 489 288 -5.19 0 99 - 0 - - - +2 14984 15122 15445 459 321 -2.12 0 0 0 - 99 - - 0025 +1 14707 14725 15546 837 819 -1.14 0 0 - - 99 - - +2 15446 15530 15700 252 168 2.99 0 - 0 - 99 - - +1 15547 15757 15894 345 135 -7.58 0 0 - - 99 - - +2 15779 15848 16033 252 183 1.14 2 - 2 - 97 - - 0026 -1 16110 16107 14959 1149 1146 5.79 99 - - - 99 - - 0027 -2 16399 16354 16142 255 210 1.61 99 - - - - 99 - -2 16894 16603 16478 414 123 -1.19 0 - - 99 - 0 0 -3 16973 16859 16365 606 492 3.29 0 - - 99 - - 0 0028 +3 16182 16200 16982 798 780 12.35 99 - - 99 - - - 0029 -1 17277 17250 17086 189 162 5.85 99 - - - 99 - - +3 17190 17217 17360 168 141 -4.04 0 - 99 0 - 0 - -1 17535 17421 17278 255 141 -1.94 0 - 99 - 0 0 - +1 17296 17470 17670 372 198 -11.72 0 0 99 - - 0 - -3 17834 17684 17505 327 177 -16.17 0 - 99 - - 0 0 +1 17698 17764 17892 192 126 -5.61 0 0 99 - - 0 - -1 18063 17970 17824 237 144 2.27 0 - 99 - 0 0 - 0030 -2 18238 18154 17156 1080 996 -3.61 0 - 99 - - 0 - -1 18495 18396 18271 222 123 2.27 0 - 99 - 0 - - -2 18862 18775 18569 291 204 -0.60 0 - 99 0 - 0 - +3 18558 18768 18890 330 120 -2.29 0 - 99 0 - - - -1 18957 18930 18796 159 132 -2.36 0 - 99 - 0 - - -3 19139 19124 18993 144 129 -10.66 0 - 99 - - - 0 0031 +2 17129 17186 19378 2247 2190 10.82 99 - 99 - - - - 0032 +1 19456 19501 19680 222 177 -3.67 99 99 - - - - - 0033 -1 19731 19683 19558 171 123 -0.42 85 - 14 - 85 - - 0034 +2 19562 19601 19774 210 171 2.36 99 - 99 - - - - +1 20020 20143 20397 375 252 5.82 0 0 - - 99 - - 0035 -1 20424 20418 19771 651 645 8.68 99 - - - 99 - - +1 20407 20566 20730 321 162 -2.12 0 0 - - 99 - - +2 20681 20798 20953 270 153 1.00 0 - 0 - 99 - - 0036 -1 21141 21069 20503 636 564 7.99 99 - - - 99 - -