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_intestinalis.result/NZ_QSPF010000071.708.AOI_01.fna /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_intestinalis.result/GLIMMER.icm /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_intestinalis.result/NZ_QSPF010000071.708.AOI_01 Sequence file = /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_intestinalis.result/NZ_QSPF010000071.708.AOI_01.fna Number of sequences = 1 ICM model file = /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_intestinalis.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_QSPF010000071.708.AOI_01 Sequence length = 21119 ----- Start ----- --- Length ---- ----------- Scores ------------ ID Frame of Orf of Gene Stop of Orf of Gene Raw InFrm F1 F2 F3 R1 R2 R3 0001 +3 3 78 395 390 315 5.17 99 - - 99 - - - 0002 -2 457 445 308 147 135 1.81 99 - - - - 99 - +1 568 571 723 153 150 0.85 0 0 - - 99 - - +1 724 760 891 165 129 -2.62 0 0 - - 99 - - +3 867 888 1025 156 135 -10.67 0 0 - 0 99 - - +2 1184 1187 1318 132 129 -7.47 0 - 0 - 99 - - -3 1622 1520 1389 231 129 -5.57 0 0 - - 99 - 0 +1 1297 1549 1683 384 132 -3.43 0 0 - - 99 - - 0003 -1 1728 1725 490 1236 1233 9.77 99 - - - 99 - - 0004 +2 1616 1652 1843 225 189 2.68 99 - 99 - - - - +3 1755 1866 2123 366 255 -6.61 0 - - 0 - 99 - +2 2096 2099 2287 189 186 0.94 0 - 0 - - 99 - -1 2502 2475 2242 258 231 -3.48 0 - - - 0 99 - +2 2288 2369 2575 285 204 -0.12 0 - 0 - - 99 - +1 2530 2557 2691 159 132 -7.19 0 0 - - - 99 0 -3 2717 2711 2544 171 165 -6.20 0 - - - - 99 0 +3 2625 2652 2777 150 123 0.23 0 - 0 0 - 99 - -3 2909 2900 2751 156 147 -10.39 0 - - - - 99 0 -1 2982 2940 2764 216 174 -8.26 0 - - - 0 99 - +2 2789 3002 3148 357 144 -1.69 0 - 0 - - 99 - +3 3432 3528 3719 285 189 -0.61 0 - 0 0 - 99 - +2 3149 3560 3823 672 261 -0.37 0 - 0 - - 99 - +3 3795 3831 4034 237 201 -6.67 0 - 0 0 - 99 - +2 3824 3836 4048 222 210 -0.48 0 - 0 - - 99 - 0005 -2 4192 4180 1751 2439 2427 9.06 99 - - - - 99 - 0006 +3 4035 4125 4265 228 138 4.12 99 - - 99 - - - 0007 -2 4501 4483 4322 177 159 1.39 97 - 2 - - 97 - 0008 -3 4574 4532 4380 192 150 1.47 97 - 2 - - - 97 0009 +2 4565 4586 4735 168 147 -0.49 99 - 99 - - - - 0010 -1 4836 4836 4684 150 150 2.06 99 - - - 99 - - -1 5199 5106 4972 225 132 -6.23 0 - 99 - 0 0 - -2 5275 5254 4955 318 297 -1.87 0 - 99 - - 0 - +3 5316 5385 5519 201 132 -10.23 0 - 99 0 - 0 - +3 5790 5847 5999 207 150 -13.49 0 - 99 0 - 0 - 0011 +2 4736 4760 6007 1269 1245 9.05 99 - 99 - - - - 0012 -1 6051 6048 5926 123 120 -6.83 94 - - - 94 5 - -2 6058 5929 5651 405 276 6.28 0 - 99 - - 0 - 0013 -2 6385 6331 6059 324 270 2.55 99 - - - - 99 - -3 6497 6356 6216 279 138 -3.41 0 - - 99 - 0 0 -3 6638 6626 6498 138 126 -7.04 0 - - 99 - 0 0 -2 6667 6637 6443 222 192 1.96 0 - - 99 - 0 - -3 6827 6824 6639 186 183 -0.50 0 - - 99 - - 0 -3 7016 6956 6828 186 126 -3.25 0 - - 99 - - 0 0014 +3 6072 6081 7034 960 951 12.28 99 - - 99 - - - 0015 +3 7035 7110 7262 225 150 2.93 51 48 - 51 - - - -1 7467 7353 7216 249 135 1.47 0 99 - - 0 - 0 -2 7630 7555 7223 405 330 -8.68 0 99 - - - 0 - -3 7784 7748 7608 174 138 -2.35 0 99 - - - - 0 +3 7674 7680 7838 162 156 -9.08 0 99 - 0 - - - 0016 +1 7102 7225 7866 762 639 9.59 99 99 - - - - - 0017 -3 8090 8003 7863 225 138 1.86 99 - - - - - 99 -1 8136 8085 7894 240 189 -11.60 0 - - - 0 - 99 -3 8339 8273 8112 225 159 -1.88 0 - - 99 - - 0 -2 8518 8503 8381 135 120 -7.77 0 - - 99 - 0 - -3 8864 8807 8442 420 363 0.18 0 - - 99 - - 0 -2 8971 8944 8804 165 138 -5.07 0 - - 99 - 0 - 0018 +3 7914 7926 8999 1083 1071 9.38 99 - - 99 - - - +3 9000 9060 9200 198 138 -9.24 0 - 99 0 - - - -2 9397 9244 9104 291 138 2.14 0 - 99 - - 0 - +3 9216 9255 9401 183 144 -4.07 0 - 99 0 - 0 - -1 9615 9540 9409 204 129 -0.55 0 - 99 - 0 0 - -2 9634 9526 9398 234 126 -0.64 0 - 99 - - 0 - 0019 +2 8984 8996 9970 984 972 11.60 99 - 99 - - - - -1 10182 10128 9988 192 138 -4.91 0 - - 99 0 - 0 -2 10681 10657 10511 168 144 -4.26 0 - - 99 - 0 0 -1 10818 10785 10615 201 168 -3.32 0 - - 99 0 - - -2 10903 10891 10727 174 162 -4.19 0 - - 99 - 0 - +1 10942 10945 11091 147 144 -4.02 0 0 - 99 - - - 0020 +3 9978 9990 11147 1167 1155 10.14 99 - - 99 - - - -3 11201 11129 10953 246 174 3.60 0 - - 99 - - 0 -3 11399 11363 11202 195 159 -6.79 0 - 99 - - - 0 -1 11406 11406 11251 153 153 -0.92 0 - 99 - 0 - - -1 11559 11556 11407 150 147 -0.42 0 - 99 - 0 - 0 0021 +2 11153 11156 11845 690 687 10.18 99 - 99 - - - - 0022 -2 11905 11875 11738 165 135 7.58 99 - - - - 99 - -2 12166 12151 12017 147 132 -2.91 0 0 - 99 - 0 - +1 12001 12061 12228 225 165 0.19 0 0 - 99 - - - 0023 +3 11775 11826 12236 459 408 8.85 99 - - 99 - - - 0024 -3 12284 12278 12108 174 168 0.84 99 - - - - - 99 0025 +3 12237 12255 12479 240 222 -2.99 99 - - 99 - - - 0026 -2 12520 12493 12332 186 159 4.53 99 - - - - 99 - 0027 +2 12404 12446 12574 168 126 -0.19 99 - 99 - - - - -1 12822 12792 12652 168 138 -0.69 0 - 99 - 0 0 - -2 12898 12763 12605 291 156 1.33 0 - 99 - - 0 - 0028 +2 12575 12596 13249 672 651 13.79 99 - 99 - - - - 0029 -2 13276 13267 12899 375 366 -4.32 99 - - - - 99 - 0030 -1 13446 13404 13225 219 177 1.68 99 - - - 99 - - 0031 -2 13636 13549 13382 252 165 -7.67 99 - - - - 99 - -3 13718 13637 13455 261 180 0.24 0 - - 99 - 0 0 -3 14090 14075 13719 369 354 0.28 0 - - 99 - - 0 +2 14231 14282 14419 186 135 -4.73 0 0 0 99 - - 0 0032 +3 13446 13464 14453 1005 987 10.56 99 - - 99 - - - +1 14254 14335 14457 201 120 -1.02 0 0 - - - - 99 +3 14454 14496 14648 192 150 -6.17 0 99 - 0 - - 0 -3 14810 14597 14454 354 141 -0.89 0 99 - 0 - - 0 +3 14670 14670 14942 270 270 -12.66 0 99 0 0 - - - -3 15128 14984 14811 315 171 -8.89 0 99 - - - - 0 0033 +1 14458 14473 15159 699 684 11.32 99 99 - - - - - -1 15171 15105 14968 201 135 -5.28 0 99 - 0 0 - 0 0034 +1 15394 15406 15717 321 309 10.27 99 99 - - - - - 0035 -3 15944 15746 15501 441 243 0.08 99 - - - - - 99 +2 15767 15806 15979 210 171 -11.74 0 99 0 - - - - -1 16188 16122 15967 219 153 -1.59 0 99 - - 0 - - +2 16046 16058 16243 195 183 -7.59 0 99 0 - - - - -3 16325 16310 16176 147 132 -7.56 0 99 - - - 0 0 -1 16521 16383 16189 330 192 0.51 0 99 - - 0 - - 0036 +1 15733 15763 16527 792 762 11.16 99 99 - - - - - +3 16587 16602 16751 162 147 -4.60 0 - 99 0 - - - -2 17065 17062 16874 189 186 -4.49 0 - 99 - - 0 - -1 17163 17139 16942 219 195 -2.98 0 - 99 - 0 - - +3 17094 17094 17243 147 147 -1.58 0 - 99 0 - - - -2 17368 17356 17153 213 201 3.59 0 - 99 - - 0 - -2 17614 17557 17369 243 186 -0.71 0 - 99 - - 0 - -1 17715 17562 17434 279 126 -3.77 0 - 99 - 0 0 - -3 18005 17996 17802 201 192 -1.26 0 - 99 - - - 0 -2 18136 18109 17972 162 135 -2.50 0 - 99 - 0 0 - -3 18227 18224 18066 159 156 -2.57 0 - 99 0 0 - 0 -1 18258 18216 17968 288 246 -6.04 0 - 99 - 0 - - +3 18015 18177 18335 318 156 -6.22 0 - 99 0 - - - -2 18400 18373 18221 177 150 -3.10 0 - 99 - - 0 - 0037 +2 16568 16574 18433 1863 1857 10.27 99 - 99 - - - - 0038 -2 18748 18658 18500 246 156 0.70 99 - - - - 99 - 0039 +2 18536 18548 18757 219 207 8.79 99 - 99 - - - - +1 18865 18937 19080 213 141 -1.39 0 0 - - - - 99 +2 19025 19073 19258 231 183 -6.65 0 - 0 - - - 99 +1 19081 19102 19281 198 177 0.08 0 0 - - - - 99 +1 19405 19420 19611 204 189 -0.13 0 0 - - - - 99 -2 19912 19900 19778 132 120 -3.82 0 - - 0 - 0 99 0040 +3 19476 19476 20264 786 786 -1.73 0 - - 0 - - 99 0041 -3 20294 20282 18882 1410 1398 8.70 99 - - - - - 99 0042 +3 20313 20313 20483 168 168 -0.43 99 - - 99 - - - +2 20747 20909 21046 297 135 -3.92 0 0 0 - 99 - - 0043 -1 21117 21096 20464 651 630 14.52 99 - - - 99 - -