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_SPHD010000181.5464.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_SPHD010000181.5464.AOI_01 Sequence file = /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_vulgatus.result/NZ_SPHD010000181.5464.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_SPHD010000181.5464.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 -1 465 384 226 237 156 -0.69 0 99 - - 0 - - 0001 +1 1 22 1092 1089 1068 10.36 99 99 - - - - - +2 1403 1463 1588 183 123 -7.87 0 99 0 - 0 - - -3 1658 1658 1530 126 126 -0.70 0 99 - - - - 0 -3 2090 2078 1938 150 138 -2.14 0 99 - - - - 0 +3 1995 2004 2129 132 123 -6.32 0 99 - 0 - - - -1 2421 2409 2257 162 150 0.70 0 99 0 - 0 - - +3 2280 2289 2453 171 162 -8.86 0 99 0 0 - - - +2 2243 2243 2566 321 321 -1.82 0 99 0 - - - - +3 2646 2688 2828 180 138 -6.48 0 99 - 0 - - - -3 3068 2990 2844 222 144 -1.30 0 99 - - - - 0 +2 3164 3176 3310 144 132 -7.32 0 99 0 - - - - -3 3323 3323 3180 141 141 -0.43 0 99 - - - - 0 -1 3333 3318 3193 138 123 0.30 0 99 - - 0 - 0 -3 3707 3545 3423 282 120 0.81 0 99 - - - - 0 -3 3899 3893 3708 189 183 -0.02 0 99 - - 0 - 0 -1 3969 3906 3676 291 228 3.17 0 99 - - 0 - - -3 4121 4106 3921 198 183 0.57 0 99 - - - - 0 -1 4266 4191 4021 243 168 -0.43 0 99 - - 0 - - +2 4088 4112 4270 180 156 -6.24 0 99 0 - 0 - - -1 4395 4392 4267 126 123 0.15 0 99 - - 0 - 0 -3 4430 4334 4212 216 120 0.65 0 99 - 0 - - 0 -2 4459 4441 4289 168 150 -7.57 0 99 - - - 0 - -1 4572 4548 4399 171 147 -2.07 0 99 - - 0 - - -3 4976 4973 4851 123 120 6.69 0 99 - - - - 0 -3 5153 5153 4977 174 174 1.60 0 99 - - 0 - 0 0002 +1 1225 1228 5160 3933 3930 10.71 99 99 - - - - - -1 5178 5106 4933 243 171 -2.01 0 99 - - 0 - - 0003 -3 5297 5297 5163 132 132 5.02 99 - - - - - 99 -1 5667 5604 5452 213 150 -3.06 0 - 99 - 0 - - 0004 +2 5408 5426 5671 261 243 6.09 99 - 99 - - - - 0005 -3 5786 5777 5601 183 174 -0.77 99 - - - - - 99 +3 5853 5901 6044 189 141 4.91 0 - 0 0 - 99 - 0006 +2 5675 5747 6136 459 387 -2.71 99 - 99 - - - - +3 6066 6072 6275 207 201 1.23 0 - - 0 - 99 - +3 6276 6291 6428 150 135 -1.12 0 - 0 0 - 99 - +2 6137 6281 6484 345 201 -0.74 0 - 0 - - 99 - -3 6605 6554 6432 171 120 -5.78 0 0 - - - 99 0 +3 6546 6594 6737 189 141 -2.84 0 - 0 0 - 99 - -1 6912 6813 6658 252 153 -7.92 0 0 - - 0 99 - +2 6845 6899 7057 210 156 -1.13 0 - 0 - - 99 - 0007 -2 7129 7117 5771 1356 1344 8.40 99 - - - - 99 - +3 6981 7017 7148 165 129 -7.47 2 97 - 2 - - - 0008 -3 7370 7346 7140 228 204 2.99 99 - - - - - 99 -2 7486 7474 7343 141 129 -9.58 0 99 - - 0 0 - -3 7781 7739 7581 198 156 0.01 0 99 - - - - 0 0009 +1 7246 7267 7908 660 639 11.24 99 99 - - - - - 0010 -1 8040 7917 7678 360 237 -1.21 99 - - - 99 - - -2 8080 7963 7802 276 159 -11.22 0 - - - 99 0 - -3 8102 8033 7911 189 120 -3.91 0 99 - - 0 0 0 -1 8406 8310 8041 363 267 -2.19 0 99 - - 0 - - -3 8474 8456 8325 147 129 -10.33 0 99 - - - - 0 -3 8651 8648 8493 156 153 -9.01 0 99 - - 0 0 0 -1 8793 8604 8434 357 168 -2.69 0 99 - - 0 0 - -3 8972 8963 8805 165 156 -5.08 0 99 - - - - 0 0011 +1 7915 7921 9000 1083 1077 11.26 99 99 - - - - - 0012 -3 9290 9275 8973 315 300 0.35 99 - - - - - 99 -2 9616 9478 9302 312 174 0.20 0 - - 99 - 0 - -3 9710 9533 9396 312 135 1.15 0 - - 99 - 0 0 +1 9667 9682 9849 180 165 -11.10 0 0 - 99 - - - -2 9967 9952 9821 144 129 3.36 0 - - 99 - 0 0 0013 +3 8985 8997 9971 984 972 12.51 99 - - 99 - - - -3 9983 9905 9711 270 192 -2.64 0 - - 99 - - 0 -2 10285 10243 10112 171 129 -4.78 0 99 - 0 - 0 - +3 10083 10158 10295 210 135 -4.18 0 99 - 0 - - - -3 10676 10673 10551 123 120 0.68 0 99 - - - - 0 -3 11093 11075 10953 138 120 -4.73 0 99 - - 0 - 0 0014 +1 9997 10000 11157 1158 1155 11.68 99 99 - - - - - -1 11163 11097 10666 495 429 0.68 0 99 - - 0 - - -3 11435 11414 11292 141 120 -7.21 0 - 99 - 0 - 0 -1 11490 11487 11281 207 204 -2.04 0 - 99 - 0 - - -2 11611 11575 11387 222 186 -4.71 0 - 99 - - 0 - +3 11703 11712 11843 138 129 -5.26 0 - 99 0 - 0 - 0015 +2 11141 11180 11866 723 684 11.55 99 - 99 - - - - 0016 -2 11878 11869 11693 183 174 3.86 99 - - - - 99 - -3 12143 12113 11910 231 201 1.40 0 99 - - - - 0 -1 12270 12147 11989 279 156 4.91 0 99 - - 0 - 0 0017 +1 11806 11896 12294 486 396 8.88 99 99 - - - - - 0018 +3 12330 12354 12590 258 234 -2.40 99 - - 99 - - - 0019 +2 12461 12461 12595 132 132 -8.16 99 - 99 - - - - +3 12648 12738 12905 255 165 -2.76 0 - 0 0 - 99 - -3 12956 12932 12783 171 147 -2.99 0 - 0 - - 99 0 +2 12713 13208 13372 657 162 0.28 0 - 0 - - 99 - +3 13344 13398 13568 222 168 -3.96 0 - 0 0 - 99 - 0020 -2 13675 13648 12683 990 963 10.97 99 - - - - 99 - 0021 +2 13373 13541 13699 324 156 1.20 99 - 99 - - - - -1 14064 14061 13900 162 159 -3.83 0 - - 0 0 - 99 +1 14077 14113 14244 165 129 -5.68 0 0 - 0 - - 99 -2 14305 14302 14147 156 153 -16.21 0 - - 0 - 0 99 0022 +3 13569 13578 14501 930 921 -2.58 0 - - 0 - - 99 -1 14553 14529 14380 171 147 -7.20 0 - - - 0 - 99 +1 14572 14575 14706 132 129 -0.94 0 0 0 0 0 - 99 -2 14908 14842 14720 186 120 -13.15 0 0 - 0 - 0 99 0023 -3 14933 14921 13668 1263 1251 5.50 99 - - - - - 99 +3 14502 14703 14993 489 288 -5.77 0 99 - 0 - - - +2 14984 15122 15445 459 321 -0.77 0 0 0 - 99 - - 0024 +1 14707 14725 15546 837 819 -1.37 0 0 - - 99 - - +2 15446 15530 15700 252 168 1.51 0 - 0 - 99 - - +1 15547 15700 15843 294 141 -4.12 0 0 - - 99 - - +2 15779 15848 16033 252 183 0.93 3 - 3 - 96 - - +1 15901 15937 16092 189 153 0.90 0 0 - - 99 - - 0025 -1 16110 16107 14959 1149 1146 5.21 99 - - - 99 - - 0026 +1 16093 16135 16287 192 150 3.06 99 99 - - - - - -2 16399 16387 16253 144 132 -4.51 0 - - 99 - 0 - -2 16894 16603 16430 462 171 -3.79 0 - - 99 - 0 0 -3 16973 16700 16365 606 333 4.48 0 - - 99 - - 0 0027 +3 16182 16200 16982 798 780 13.00 99 - - 99 - - - 0028 -1 17277 17250 17086 189 162 6.76 99 - - - 99 - - +3 17190 17217 17360 168 141 -4.13 0 - 99 0 - 0 - -1 17535 17421 17278 255 141 -2.27 0 - 99 - 0 0 - +1 17461 17470 17670 207 198 -11.20 0 0 99 - - 0 - -3 17834 17684 17505 327 177 -16.16 0 - 99 - - 0 0 +1 17698 17764 17892 192 126 -6.04 0 0 99 - - 0 - -1 18063 17970 17824 237 144 1.60 0 - 99 - 0 0 - 0029 -2 18238 18154 17156 1080 996 -3.48 0 - 99 - - 0 - -1 18495 18396 18271 222 123 2.85 0 - 99 - 0 - - -2 18862 18775 18569 291 204 -0.87 0 - 99 0 - 0 - +3 18558 18768 18890 330 120 -3.06 0 - 99 0 - - - -1 18957 18930 18796 159 132 -2.58 0 - 99 - 0 - - -3 19139 19124 18993 144 129 -10.91 0 - 99 - - - 0 0030 +2 17129 17186 19378 2247 2190 10.88 99 - 99 - - - - 0031 +1 19456 19501 19680 222 177 -3.46 99 99 - - - - - 0032 -1 19731 19683 19558 171 123 -0.47 19 - 7 72 19 - - 0033 +2 19562 19601 19774 210 171 2.98 99 - 99 - - - - +1 20020 20143 20397 375 252 4.99 0 0 - - 99 - - 0034 -1 20424 20418 19771 651 645 8.61 99 - - - 99 - - +1 20407 20566 20730 321 162 -2.33 0 0 - - 99 - - +2 20681 20798 20953 270 153 1.24 0 - 0 - 99 - - 0035 -1 21141 21069 20503 636 564 8.12 99 - - - 99 - -