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_VOHT010000011.8110.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_VOHT010000011.8110.AOI_01 Sequence file = /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_fragilis.result/NZ_VOHT010000011.8110.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_VOHT010000011.8110.AOI_01 Sequence length = 20972 ----- Start ----- --- Length ---- ----------- Scores ------------ ID Frame of Orf of Gene Stop of Orf of Gene Raw InFrm F1 F2 F3 R1 R2 R3 +1 4 52 186 180 132 -9.63 0 0 18 - - 81 - -1 297 285 127 168 156 -3.48 0 - 95 - 0 4 - 0001 +2 2 83 367 363 282 6.14 91 - 91 - - 8 - 0002 +3 348 441 569 219 126 -1.07 99 - - 99 - - - -1 783 753 541 240 210 -1.96 0 - - - 0 - 99 +2 635 656 787 150 129 -11.30 0 0 0 0 0 - 99 +3 621 669 821 198 150 -7.02 0 0 - 0 - - 99 +1 553 850 972 417 120 -5.88 0 0 - 0 - - 99 +3 822 972 1148 324 174 -1.68 0 - 0 0 - - 99 +2 962 1127 1270 306 141 -6.27 0 - 0 - - - 99 0003 -3 1313 1304 444 867 858 7.25 99 - - - - - 99 0004 +3 1149 1149 1325 174 174 1.30 99 - - 99 - - - 0005 -2 1678 1657 1520 156 135 -1.12 99 - - - - 99 - 0006 +1 1717 1759 1884 165 123 3.86 99 99 - - - - - 0007 +2 1835 1835 2257 420 420 12.15 99 - 99 - - - - 0008 -2 2281 2281 2009 270 270 -0.25 99 - - - - 99 - 0009 -2 2479 2446 2318 159 126 5.64 99 - - - - 99 - 0010 +1 2473 2530 2673 198 141 -0.54 99 99 - - - - - 0011 -1 2913 2877 2734 177 141 9.41 99 - - - 99 - - 0012 -2 2962 2941 2783 177 156 6.36 99 - - - - 99 - 0013 +1 2818 2860 2982 162 120 6.28 99 99 - - - - - -3 3488 3488 3327 159 159 5.64 0 - - 99 - - 0 -3 3701 3674 3543 156 129 6.29 0 - - 99 - - 0 +1 3841 3841 4014 171 171 3.37 0 0 - 99 - - 0 -3 4016 3992 3837 177 153 3.02 0 0 - 99 - - 0 -3 4268 4193 4062 204 129 -3.28 0 - - 99 - - 0 -3 4511 4505 4356 153 147 2.45 0 - - 99 - - 0 -3 4694 4694 4515 177 177 4.82 0 - - 99 - - 0 0014 +3 3267 3276 4733 1464 1455 12.27 99 - - 99 - - - 0015 -3 4865 4847 4719 144 126 11.00 40 59 - - - - 40 0016 +1 4699 4741 5274 573 531 12.67 99 99 - - - - - 0017 -1 5346 5322 5188 156 132 0.90 99 - - - 99 - - -1 5523 5514 5347 174 165 -0.67 1 - 98 - 1 - - -2 5563 5542 5387 174 153 -4.14 0 - 99 - - 0 - 0018 +2 5351 5396 5599 246 201 -1.24 99 - 99 - - - - -3 5678 5645 5511 165 132 -0.65 0 99 - - - - 0 -2 5791 5758 5633 156 123 -0.55 0 99 - - 0 0 - -1 5940 5703 5551 387 150 -0.14 0 99 - - 0 - - -3 5972 5957 5835 135 120 5.13 0 99 - - - - 0 0019 +1 5500 5560 5979 477 417 13.57 99 99 - - - - - 0020 -2 6334 6298 6083 249 213 4.51 99 - - - - 99 - 0021 -2 6670 6649 6473 195 174 4.63 99 - - - - 99 - +1 7090 7270 7410 318 138 -18.47 0 0 1 3 - 1 93 +3 7083 7332 7469 384 135 -4.08 7 - 90 7 - 1 - -2 7507 7393 7256 249 135 -6.32 0 0 3 6 - 0 89 0022 -3 7640 7607 7479 159 126 -0.30 26 - 73 - - - 26 0023 +2 6536 6617 7978 1440 1359 1.26 99 - 99 - - - - 0024 +3 7578 7578 7994 414 414 1.08 99 - - 99 - - - 0025 -3 8102 8069 7878 222 189 0.82 99 - - - - - 99 -1 8211 8205 8074 135 129 0.06 0 - 99 - 0 - - -2 8365 8359 8162 201 195 4.18 0 - 99 - - 0 - -2 9073 9058 8780 291 276 2.92 0 - 99 - - 0 - -3 9230 9224 9099 129 123 0.30 0 - 99 - - - 0 -2 9298 9286 9128 168 156 -0.85 0 - 99 - - 0 - 0026 +2 8012 8015 9598 1584 1581 13.76 99 - 99 - - - - -1 10347 10302 10168 177 132 0.85 0 99 - - 0 - - -1 11064 11043 10873 189 168 0.14 0 99 - - 0 - - 0027 +1 9988 9988 11118 1128 1128 11.17 99 99 - - - - - 0028 +2 10991 10994 11167 174 171 1.36 99 - 99 - - - - 0029 +1 11119 11131 11316 195 183 2.09 99 99 - - - - - +1 11449 11542 11667 216 123 2.02 0 0 - - 0 - 99 +2 11582 11606 11731 147 123 -0.34 0 - 0 - 0 - 99 0030 -3 11753 11663 11196 555 465 5.61 99 - 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0 0 - 0 99 +3 14271 14730 14957 684 225 -4.42 0 - - 0 - - 99 -1 15126 14937 14803 321 132 -6.27 0 - - 0 0 - 99 0037 -3 15305 15299 14313 990 984 2.60 99 - - - - - 99 0038 +3 15114 15117 15371 255 252 0.87 99 - - 99 - - - 0039 -1 15462 15441 15310 150 129 -2.40 80 19 - - 80 - - +1 15226 15436 15603 375 165 -1.04 2 2 - - - - 97 0040 -2 15736 15655 15506 228 147 -4.01 99 - - - - 99 - -3 15779 15740 15612 165 126 -12.06 0 - - - 99 0 0 +1 15706 15784 15933 225 147 0.21 0 0 - - 99 - - +2 15821 15863 16039 216 174 -4.30 0 - 0 - 99 - - +1 16120 16156 16311 189 153 -1.82 0 0 - - 99 0 0 -3 16313 16301 16146 165 153 -1.68 0 0 - - 99 0 0 -2 16342 16291 16049 291 240 -8.33 0 - - - 99 0 - 0041 -1 16374 16362 15538 834 822 6.55 99 - - - 99 - - 0042 +2 16253 16280 16405 150 123 -4.74 99 - 99 - - - - +3 16437 16509 16706 267 195 -0.58 0 - - 0 - - 99 +2 16673 16679 16864 189 183 -0.60 0 - 0 - - - 99 +3 16803 16821 17078 273 255 0.76 0 - - 0 - - 99 -2 17086 17053 16928 156 123 -1.87 0 - - 0 - 0 99 +1 17017 17029 17163 144 132 -9.67 0 0 - 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99 - +3 20088 20529 20780 690 249 -0.45 0 - 0 0 - 99 - -1 20832 20817 20683 147 132 -9.52 0 - 0 - 0 99 - 0049 -2 20971 20878 20138 831 738 6.24 99 - - - - 99 -