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_thetaiotaomicron.result/NC_0046631.1.AOI_02.fna /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_thetaiotaomicron.result/GLIMMER.icm /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_thetaiotaomicron.result/NC_0046631.1.AOI_02 Sequence file = /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_thetaiotaomicron.result/NC_0046631.1.AOI_02.fna Number of sequences = 1 ICM model file = /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_thetaiotaomicron.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% >NC_0046631.1.AOI_02 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 +3 3 18 293 288 273 -2.79 0 - - 0 - - 99 +1 310 343 486 174 141 -0.23 0 0 - - - - 99 -3 1079 1079 942 135 135 0.57 0 0 - 99 - - 0 +1 946 955 1083 135 126 -5.01 0 0 - 99 - - 0 -2 1450 1414 1259 189 153 -0.16 0 - - 99 - 0 0 -3 1610 1598 1080 528 516 0.50 0 - - 99 - - 0 +1 1981 2038 2169 186 129 -8.06 0 0 - 99 - - - 0001 +3 630 630 2378 1746 1746 11.80 99 - - 99 - - - 0002 -3 2396 2384 2241 153 141 2.27 99 - - - - - 99 0003 +3 2433 2463 2591 156 126 0.24 98 - - 98 - 1 0 0004 -3 2603 2594 2397 204 195 -5.60 99 - - - - - 99 -1 2841 2814 2677 162 135 -3.96 2 97 - - 2 - - 0005 +1 2638 2698 2862 222 162 -3.13 99 99 - - - - - +1 2875 2875 2997 120 120 -7.74 0 0 - - - 99 - +3 2913 2943 3071 156 126 -5.58 0 - - 0 - 99 - -1 3510 3504 3367 141 135 -6.22 0 - 0 - 0 99 - +2 3257 3395 3529 270 132 -8.36 0 - 0 - - 99 - 0006 -2 3772 3718 2834 936 882 5.00 99 - - - - 99 - 0007 -3 3914 3827 3663 249 162 -3.98 99 - - - - - 99 -3 4106 4076 3951 153 123 0.32 0 - - - 99 - 0 0008 -1 4164 4137 3727 435 408 8.06 99 - - - 99 - - 0009 +3 3981 4035 4217 234 180 2.72 99 - - 99 - - - -1 4659 4647 4489 168 156 -5.57 0 - 0 0 0 99 - +2 4310 4571 4693 381 120 1.50 0 - 0 0 - 99 - +3 4452 4533 4745 291 210 0.12 0 - - 0 - 99 - +2 4790 4808 4966 174 156 1.58 0 - 0 - - 99 - +3 4866 4887 5063 195 174 -5.76 0 - - 0 - 99 - +2 4967 5342 5566 597 222 -2.95 0 - 0 - - 99 - +2 5567 5591 5752 183 159 2.90 0 - 0 - - 99 0 -3 5825 5774 5571 252 201 -4.81 0 - - - - 99 0 0010 -2 5848 5737 4334 1512 1401 8.43 99 - - - - 99 - 0011 +1 5704 5716 5865 159 147 -0.45 99 99 - - - - - +1 5866 5878 6003 135 123 1.49 0 0 - - - - 99 0012 -3 6428 6407 5841 585 564 12.10 99 - - - - - 99 0013 +3 5940 6135 6479 537 342 2.59 99 - - 99 - - - 0014 +3 6585 6600 6761 174 159 2.82 99 - - 99 - - - 0015 -2 6817 6778 6614 201 162 -4.32 99 - - - - 99 - -1 7116 7110 6988 126 120 -2.30 11 - - 88 11 - - 0016 +3 6960 6984 7136 174 150 -0.12 99 - - 99 - - - 0017 -3 7289 7238 7107 180 129 1.31 99 - - - - - 99 -1 7353 7302 7159 192 141 -1.91 0 99 - - 0 - - -2 7399 7357 7235 162 120 -10.90 0 99 - - 0 0 - 0018 +1 7144 7174 7824 678 648 6.02 99 99 - - - - - -1 8571 8379 8251 318 126 -8.15 0 - 90 - 0 9 - -1 8895 8868 8728 165 138 -3.23 0 - 86 - 0 13 - 0019 +2 7832 7850 8923 1089 1071 5.11 99 - 99 - - 0 - 0020 -2 8935 7936 7643 1290 291 -0.48 99 - - - - 99 - -3 9152 9104 8967 183 135 -3.15 0 99 - - 0 - 0 0021 -1 9324 9168 8896 426 270 2.58 99 - - - 99 - - -1 9525 9450 9325 198 123 -2.06 0 99 - - 0 - - -3 9539 9464 9333 204 129 -0.39 0 99 - - 0 - 0 0022 +1 8908 8920 9894 984 972 10.92 99 99 - - - - - -1 9897 9687 9526 369 159 -3.41 0 99 - - 0 - - +3 10062 10062 10202 138 138 -2.56 0 - 99 0 - - - -3 10292 10271 10089 201 180 0.18 0 - 99 - - - 0 -2 10852 10432 10190 660 240 1.18 0 - 99 - - 0 - +3 10758 10824 10958 198 132 -5.45 0 - 99 0 - - 0 -3 11012 10967 10821 189 144 -9.08 0 - 99 - - - 0 -2 11086 11032 10853 231 177 0.97 0 - 99 - - 0 - 0023 +2 9986 9989 11137 1149 1146 10.82 99 - 99 - - - - -3 11372 11339 11217 153 120 -5.77 0 99 - - - - 0 -3 11522 11507 11373 147 132 -4.00 0 99 - - - - 0 -1 11796 11577 11413 381 162 -4.20 0 99 - - 0 - - 0024 +1 11059 11134 11847 786 711 9.68 99 99 - - - - - +1 12067 12121 12246 177 123 -4.49 0 0 - 99 - 0 0 -2 12250 12115 11978 270 135 -0.59 0 - - 99 - 0 - 0025 +3 11826 11862 12254 426 390 11.19 99 - - 99 - - - 0026 +3 12444 12492 12710 264 216 -1.94 99 - - 99 - - - +3 12711 12849 12995 282 144 -5.60 0 - - 0 - - 99 +1 12871 12874 13074 201 198 -0.34 0 0 - - - - 99 +1 13153 13246 13389 234 141 1.07 0 0 - 0 - - 99 +3 12996 13062 13415 417 351 0.66 0 - - 0 - - 99 0027 -3 13475 13469 12501 972 966 10.86 99 - - - - - 99 0028 +1 13390 13429 13560 168 129 -4.09 99 99 - - - - - -1 13686 13686 13540 144 144 -11.43 0 - 0 - 0 99 0 -3 13694 13679 13506 186 171 -10.35 0 - 99 - - - 0 +2 13448 13589 13753 303 162 1.23 0 - 0 - - 99 - +3 13602 13647 13820 216 171 -0.34 0 - - 0 - 99 - -1 13938 13917 13795 141 120 -2.95 0 - 0 - 0 99 - -1 14148 14115 13939 207 174 -7.71 0 - 3 - 0 96 - +2 13754 14039 14209 453 168 2.43 0 - 0 - - 99 - +3 14289 14289 14411 120 120 -3.21 0 - 0 0 - 99 - +2 14210 14264 14485 273 219 2.01 0 - 0 - - 99 - +3 14412 14538 14681 267 141 -4.74 0 - - 0 - 99 - +3 14682 14682 14918 234 234 -5.15 0 - - 0 - 99 - 0029 -2 14938 14764 13511 1425 1251 6.14 99 - - - - 99 - +2 14900 14900 15031 129 129 -1.03 0 0 0 - 99 - 0 -3 15074 15017 14886 186 129 -9.43 0 0 - - 99 - 0 +2 15032 15041 15277 243 234 -1.63 0 0 0 - 99 - - +1 14761 14860 15285 522 423 -0.15 0 0 - - 99 - - +2 15350 15395 15523 171 126 -0.52 0 0 0 - 99 - - +2 15614 15728 15904 288 174 0.96 0 - 0 - 99 - - 0030 -1 15921 15873 14791 1128 1080 4.74 99 - - - 99 - - 0031 -2 16018 15979 15830 186 147 3.61 99 - - - - 99 - +2 16028 16043 16210 180 165 -7.88 0 99 0 - - - - -3 16358 16343 16221 135 120 2.87 4 95 - - 0 - 4 -1 16689 16176 16054 633 120 -2.64 0 99 0 - 0 - - -2 16753 16708 16565 186 141 -3.91 0 99 - - - 0 - 0032 +1 15883 15919 17130 1245 1209 9.17 99 99 - - - - - -1 17130 16995 16690 438 303 0.53 0 99 - - 0 - - 0033 +2 17018 17021 17203 183 180 -3.61 99 - 99 - - - - 0034 -2 17341 17332 17099 240 231 5.12 99 - - - - 99 - -1 17628 17523 17329 297 192 -4.26 0 - 99 - 0 - - 0035 +2 17204 17354 17632 426 276 -4.03 17 - 17 - 82 - - +1 17893 17896 18033 138 135 -4.86 0 0 - 0 - - 99 -2 18163 18145 17972 189 171 -3.96 0 - - 0 - 0 99 +3 17832 17976 18236 402 258 -1.49 0 - - 0 - - 99 0036 -3 18275 18248 17406 867 840 7.32 99 - - - - - 99 +1 18409 18538 18702 291 162 4.38 0 0 - - 99 - - 0037 -1 18900 18870 18355 543 513 12.74 99 - - - 99 - - +2 19040 19283 19414 372 129 0.55 0 - 0 - - 99 - 0038 -2 19453 19441 18926 525 513 13.98 99 - - - - 99 - +1 19483 19489 19635 150 144 3.40 0 0 - - 99 - - +3 19689 19794 19937 246 141 -5.75 0 - - 0 99 - - +1 19897 19939 20100 201 159 1.74 0 0 - - 99 - - -3 20186 20168 20022 162 144 -5.37 0 - - - 99 - 0 -3 20609 20591 20325 282 264 -3.43 0 - - - 99 - 0 +2 20651 20672 20818 165 144 -3.84 0 0 0 - 99 - - +1 20575 20629 20874 297 243 0.46 0 0 - - 99 - - +3 20769 20769 20900 129 129 -0.28 0 - - 0 99 - - 0039 -1 21126 21075 19465 1659 1608 9.90 99 - - - 99 - -