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_QSVT010000081.7299.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_QSVT010000081.7299.AOI_01 Sequence file = /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_fragilis.result/NZ_QSVT010000081.7299.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_QSVT010000081.7299.AOI_01 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 -3 260 167 33 225 132 -8.15 0 99 - - - - 0 +2 152 239 373 219 132 -3.53 0 99 0 - 0 - - -1 606 222 70 534 150 1.40 0 99 - - 0 - 0 -3 683 527 330 351 195 -2.66 0 99 - - 0 - 0 0001 +1 1 40 963 960 921 12.24 99 99 - - - - - 0002 -1 1227 1182 1042 183 138 0.62 77 - - - 77 - 22 -2 1462 1450 1289 171 159 -1.28 0 - - 99 - 0 0 -1 1551 1527 1405 144 120 -2.21 0 - - 99 0 - 0 +1 1417 1513 1635 216 120 -4.51 0 0 - 99 - - 0 -2 2236 2224 2063 171 159 -1.04 0 - - 99 - 0 0 0003 -3 2264 1292 1005 1257 285 2.81 99 - - - - - 99 -2 2434 2395 2237 195 156 -4.45 0 - - 99 - 0 - 0004 +3 1173 1185 2585 1410 1398 8.21 99 - - 99 - - - -3 2594 2471 2349 243 120 -2.03 0 - - 99 - - 0 -2 2617 2560 2435 180 123 -1.79 0 - - 99 - 0 0 0005 +1 2452 2461 2634 180 171 -0.55 99 99 - - - - - 0006 +1 2635 2644 2979 342 333 9.87 99 99 - - 0 - - -3 3206 3203 3018 186 183 -3.70 0 99 - - - - 0 +2 3077 3080 3223 144 141 -8.69 0 99 0 - 0 - - -1 3423 3384 3220 201 162 -1.77 0 99 - - 0 - - +2 3326 3359 3505 177 144 -3.35 0 99 0 - - - - 0007 +1 3007 3025 3789 780 762 8.34 99 99 - - - - - 0008 -1 3891 3840 3451 438 387 1.49 99 - - - 99 - - +2 3674 3872 4021 345 147 -4.92 0 - 0 - - 99 - +1 4282 4282 4488 204 204 -10.37 0 0 - 0 - 99 - 0009 -2 4513 4510 3818 693 690 9.45 99 - - - - 99 - +3 4167 4260 4517 348 255 0.54 0 - - 0 - 99 - 0010 -3 4556 4550 4413 141 135 -3.89 99 - - - - - 99 0011 -1 4800 4737 4507 291 228 -2.52 99 - - - 99 - - -3 4910 4769 4581 327 186 -6.48 0 - - - 0 99 0 +2 4805 4826 5038 231 210 4.86 0 - 0 - - 99 - +3 4863 4899 5045 180 144 -0.21 0 - - 0 - 99 - +3 5154 5175 5327 171 150 -2.09 0 - 0 0 - 99 - +2 5039 5165 5425 384 258 1.01 0 - 0 - - 99 - 0012 -2 5611 5566 4553 1056 1011 9.71 99 - - - - 99 - 0013 +3 5733 5781 5927 192 144 -3.94 55 - - 55 - - 44 0014 -3 6032 5840 5592 438 246 -2.37 99 - - - - - 99 0015 +1 5893 5911 6069 174 156 -2.61 99 99 - - - - - +2 6101 6296 6574 471 276 4.80 0 - 0 - - 99 - 0016 -2 6580 6568 6002 576 564 13.39 99 - - - - 99 - 0017 +3 6747 6762 6923 174 159 2.94 99 - - 99 - - 0 0018 -2 7060 7036 6776 282 258 -1.23 99 - - - - 99 - -3 7331 7256 7119 210 135 3.07 0 99 - - 0 - 0 0019 +1 7123 7135 7776 651 639 8.69 99 99 - - 0 - - 0020 +2 7676 7676 7825 147 147 -0.01 99 - 99 - 0 - - 0021 -1 7926 7335 7006 918 327 -0.15 99 - - - 99 - - -2 8038 8017 7883 153 132 -1.29 0 - - 99 - 0 0 0022 -3 8318 8240 7773 543 465 0.31 99 - - - - - 99 -2 8425 8419 8258 165 159 -10.95 0 0 - 99 - 0 - +1 8164 8278 8448 282 168 -11.93 0 0 - 99 - - - -2 8851 8824 8684 165 138 -5.58 0 - - 99 - 0 0 +2 8696 8729 8860 162 129 -4.75 0 - 0 99 - - 0 -3 8870 8750 8319 549 429 3.18 0 - - 99 - - 0 0023 +3 7797 7806 8879 1080 1071 10.08 99 - - 99 - - - 0024 -2 9184 9025 8852 330 171 -0.47 99 - - - - 99 - +3 9171 9255 9383 210 126 -5.04 0 - 99 0 - - - -2 9646 9412 9284 360 126 -0.90 0 - 99 - - 0 - 0025 +2 8864 8876 9850 984 972 11.09 99 - 99 - - - - 0026 -2 9871 9868 9647 222 219 -0.34 99 - - - - 99 - -1 10191 10134 9961 228 171 2.15 0 99 - - 0 - - -2 10243 10132 9989 252 141 -8.51 0 99 - - 0 0 - +2 10103 10202 10330 225 126 -3.11 0 99 0 - - - - +2 10451 10460 10633 180 171 -10.38 0 99 0 - 0 - - -1 10854 10803 10420 432 381 -2.37 0 99 - - 0 - - 0027 +1 9940 9991 11139 1197 1146 10.48 99 99 - - - - - -1 11286 10986 10855 429 129 2.93 0 99 - - 0 - - -3 11342 11279 11151 189 126 1.94 0 - - 99 0 - 0 -2 11374 11350 11219 153 129 -5.27 0 - - 99 - 0 - -3 11636 11636 11427 207 207 2.13 0 - - 99 - - 0 0028 +3 11082 11172 11831 747 657 6.02 99 - - 99 - - - 0029 -3 12080 12017 11832 246 183 3.05 18 81 - - - - 18 -1 12102 12084 11851 249 231 -1.39 0 99 - - 0 - 0 0030 +1 11818 11926 12231 411 303 7.62 99 99 - - - - - +2 11954 12116 12259 303 141 -5.03 6 - 6 - 82 - 10 0031 -3 12281 12263 12081 198 180 -3.05 99 - - - - - 99 0032 -1 12378 12252 12103 273 147 -3.72 58 - 8 - 58 - 33 0033 +1 12256 12256 12480 222 222 -0.84 99 99 - - - - - +1 12700 12703 12849 147 144 -1.67 0 0 - 0 - - 99 0034 +3 12339 12411 13172 831 759 -0.43 0 - - 0 - - 99 +1 13075 13303 13434 357 129 -5.91 1 1 - - 3 - 95 0035 -3 13442 13361 12330 1110 1029 10.79 99 - - - - - 99 -1 13569 13323 13180 387 141 -5.37 0 0 - - 0 - 99 +3 13431 13452 13637 204 183 -4.67 0 - 0 0 - 99 - +2 13364 13592 13717 351 123 -2.34 0 - 0 - - 99 - 0036 -2 14131 14068 13340 789 726 8.71 99 - - - - 99 - -3 14135 14120 13992 141 126 -3.92 0 - - - - 99 0 -2 14464 14458 14243 219 213 -5.69 0 - - - 99 0 - +2 14306 14429 14593 285 162 -5.25 0 0 0 - 99 - - -3 14717 14660 14511 204 147 -12.86 0 0 - - 99 0 0 -3 14960 14939 14718 240 219 -6.89 0 0 - - 99 - 0 +1 14389 14881 15018 627 135 1.86 0 0 - - 99 - - +2 14942 14954 15115 171 159 -0.14 0 - 0 - 99 - - +1 15019 15037 15183 162 144 1.02 0 0 - - 99 - - 0037 -1 15237 15186 14107 1128 1077 7.27 99 - - - 99 - - 0038 +3 15264 15306 15437 171 129 -3.78 77 - - 77 - 22 - -1 15792 15771 15643 147 126 -10.32 0 - 0 - 0 99 0 +2 15602 15704 15859 255 153 0.97 1 - 1 0 - 98 - +3 15660 15663 15926 264 261 -1.00 0 - - 0 - 99 - +2 15860 15875 16012 150 135 -1.74 0 - 0 - - 99 - +2 16013 16145 16345 330 198 2.10 0 - 0 - - 99 - +3 16194 16203 16361 165 156 -4.50 0 - - 0 - 99 - +2 16346 16358 16615 267 255 -1.34 0 - 0 - - 99 - +3 16518 16617 16742 222 123 -3.23 0 0 - 0 - 99 - 0039 -2 16876 16864 15617 1257 1245 4.46 99 - - - - 99 - +3 16998 17013 17147 147 132 -3.36 0 - 0 0 - 99 - +3 17148 17232 17357 207 123 -2.75 0 - 0 0 - 99 - 0040 +2 16811 16817 17404 591 585 0.66 99 - 99 - - - - +3 17436 17457 17618 180 159 -1.59 0 - - 0 - 99 - +2 17486 17618 17866 378 246 0.72 0 - 0 - - 99 - 0041 -2 18118 17959 16877 1239 1080 5.77 99 - - - - 99 - 0042 +2 17867 17972 18124 255 150 -0.68 99 0 99 - - - - -2 18295 18259 18131 162 126 -11.34 0 0 - - 99 0 - 0043 -1 18330 18309 18073 255 234 8.33 99 0 - - 99 - - 0044 +1 17968 18004 18363 393 357 -2.90 99 99 - - - - - 0045 +3 18318 18327 18476 156 147 1.16 99 - - 99 - - - -3 18692 18638 18486 204 150 -8.71 0 - - - - 99 0 +3 18630 18828 19013 381 183 -3.62 0 - - 0 - 99 0 -3 19022 18995 18807 213 186 -7.24 0 - - 0 - 99 0 0046 -2 19249 19228 18386 861 840 8.56 99 - - - - 99 - 0047 +3 19122 19158 19313 189 153 -8.83 99 - - 99 - - - +2 19328 19379 19672 342 291 1.63 0 - 0 - - 99 - 0048 -2 19897 19840 19331 564 507 13.49 99 - - - - 99 - +1 20215 20269 20391 174 120 -10.56 0 0 0 - - 99 0 0049 -2 20425 20413 19898 525 513 13.53 99 - - - - 99 - 0050 +2 20423 20429 20647 222 216 1.91 99 - 99 - - - - +3 20442 20502 20654 210 150 -1.35 0 - - 0 - 99 - +1 20602 20830 20958 354 126 -9.22 0 0 - - - 99 - 0051 -2 21127 21052 20438 687 612 12.32 99 - - - - 99 -