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_plebeius.result/NZ_QRHQ010000041.742.AOI_01.fna /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_plebeius.result/GLIMMER.icm /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_plebeius.result/NZ_QRHQ010000041.742.AOI_01 Sequence file = /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_plebeius.result/NZ_QRHQ010000041.742.AOI_01.fna Number of sequences = 1 ICM model file = /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_plebeius.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_QRHQ010000041.742.AOI_01 Sequence length = 20209 ----- Start ----- --- Length ---- ----------- Scores ------------ ID Frame of Orf of Gene Stop of Orf of Gene Raw InFrm F1 F2 F3 R1 R2 R3 0001 +1 1 61 225 222 162 7.77 99 99 - - - - - 0002 +3 141 183 314 171 129 -3.64 99 - - 99 - - - 0003 -3 338 338 195 141 141 1.68 99 - - - - - 99 +2 353 353 499 144 144 -4.82 0 99 0 - - - - -3 542 521 387 153 132 -5.53 0 99 - - - - 0 +3 393 444 623 228 177 -8.39 0 99 - 0 - - - +2 500 512 643 141 129 -10.31 0 99 0 - - - - -1 891 858 715 174 141 -6.94 0 99 - - 0 - - +2 785 872 1009 222 135 -5.13 0 99 0 - - - - 0004 +1 241 250 1167 924 915 8.56 99 99 - - - - - 0005 -1 1221 1197 1072 147 123 -2.53 38 - - - 38 - 61 +2 1280 1313 1495 213 180 -2.48 0 0 0 - 99 - - +1 1210 1237 1608 396 369 -2.05 0 0 - - 99 - - -3 1742 1697 1575 165 120 -7.27 0 - - - 99 - 0 +2 1721 1727 1858 135 129 0.71 0 0 0 - 99 - - +1 1609 1624 1884 273 258 -1.21 0 0 - - 99 - - 0006 -1 2181 2157 1222 957 933 10.64 99 - - - 99 - - +1 1921 2293 2427 504 132 2.35 0 0 0 - - - 99 +1 2428 2437 2565 135 126 -5.55 0 0 - - - - 99 +3 2463 2547 2762 297 213 -3.95 0 - - 0 - - 99 +3 2763 2763 2906 141 141 -3.24 0 - - 0 0 - 99 +3 2907 3216 3398 489 180 -3.41 0 - - 0 0 - 99 -1 3759 3381 3187 570 192 -8.41 0 - - 0 0 - 99 -2 4009 3955 3833 174 120 -10.78 0 - - 0 - 0 99 +1 3919 3946 4098 177 150 -4.61 0 0 - 0 - - 99 0007 -3 4535 4529 2163 2370 2364 10.32 99 - - - - - 99 +1 4375 4657 4785 408 126 0.06 0 0 - 0 - - 99 -2 4831 4819 4679 150 138 -3.23 0 - - 0 - 0 99 +1 4894 4909 5037 141 126 -5.30 0 0 - 0 - - 99 0008 +3 3399 3453 5078 1677 1623 -2.19 0 - - 0 - - 99 0009 -3 5231 5219 4542 687 675 14.01 99 - - - - - 99 0010 +1 5038 5128 5310 270 180 -7.88 99 99 - - - - - 0011 -3 5501 5486 5355 144 129 5.32 99 - - - - - 99 0012 +1 5446 5464 5592 144 126 4.39 99 99 - - 0 - - 0013 -1 5598 5526 5395 201 129 -0.87 99 - - - 99 - - 0014 -2 5647 5644 5483 162 159 -1.45 99 - - - - 99 - +3 5625 5658 5825 198 165 -2.95 0 0 - 0 - - 99 +1 5593 5680 5883 288 201 -0.34 0 0 - - - - 99 +1 6034 6034 6180 144 144 -1.42 0 0 - - - - 99 +1 6187 6190 6336 147 144 2.80 0 0 0 0 - - 99 -2 6550 6406 6266 282 138 -6.23 0 - 0 0 - 0 99 +3 6111 6633 6818 705 183 -1.79 0 0 - 0 0 - 99 -1 6834 6618 6466 366 150 -5.09 0 - - 0 0 - 99 +1 6595 6745 6885 288 138 -3.15 0 0 - - - - 99 0015 -3 7013 6830 5631 1380 1197 10.91 99 - - - - - 99 0016 -2 7135 7135 6878 255 255 -2.39 99 - - - - 99 - 0017 -3 7262 7262 7071 189 189 -3.81 46 53 - - - - 46 0018 +1 7075 7102 7266 189 162 -3.93 78 78 - - - - 21 0019 -1 7353 7296 7150 201 144 -1.11 99 - - - 99 - - 0020 +2 7229 7235 7885 654 648 10.10 99 - 99 - - - - -3 8417 8294 8049 366 243 -3.48 0 - - 99 - - 0 +1 8290 8302 8436 144 132 -13.20 0 0 - 99 - - - -2 8635 8599 8477 156 120 -5.34 0 - - 99 - 0 0 -3 8777 8624 8418 357 204 -3.32 0 - - 99 - - 0 0021 +3 7869 7869 8978 1107 1107 9.79 99 - - 99 - - - 0022 -3 8981 8981 8778 201 201 -1.24 99 - - - - - 99 -2 9277 9232 9020 255 210 -1.00 0 - 99 - - 0 - +3 9111 9150 9281 168 129 -5.11 0 - 99 0 - 0 - -1 9957 9939 9808 147 129 2.38 0 - 99 - 0 0 - 0023 +2 8969 8984 9961 990 975 13.46 99 - 99 - - - - -2 9985 9754 9341 642 411 0.18 0 - 99 - - 0 - -1 10089 10083 9958 129 123 -2.39 0 - 99 - 0 - - -1 10275 10266 10090 183 174 1.03 0 - 99 - 0 0 - -2 10327 10225 10070 255 153 2.86 0 - 99 - - 0 - +3 10137 10137 10334 195 195 -8.81 0 - 99 0 - - - -2 10477 10468 10328 147 138 -4.90 0 - 99 - - 0 - +1 10387 10402 10554 165 150 -6.83 0 0 99 - - - - -3 10631 10586 10437 192 147 -9.14 0 - 99 - - - 0 -2 10675 10657 10493 180 162 -4.24 0 - 99 - - 0 - -1 10797 10635 10504 291 129 -3.75 0 - 99 - 0 0 0 0024 +2 9962 9998 11152 1188 1152 11.96 99 - 99 - - - - -2 11164 10822 10676 486 144 -1.47 0 - 99 - - 0 - -1 11478 11415 11281 195 132 -3.75 0 99 - - 0 - - 0025 +1 11026 11149 11814 786 663 11.02 99 99 - - - - - -1 11838 11661 11479 357 180 -1.57 0 99 - - 0 - - 0026 +2 11795 11825 12223 426 396 10.63 99 - 99 - - - - -1 12228 12030 11839 387 189 0.85 0 - 99 - 0 - - +2 12296 12359 12526 228 165 -4.75 0 - 0 - 99 - - +1 12385 12829 13128 741 297 -0.43 0 0 - - 99 - - 0027 -1 13284 13275 12307 975 966 8.20 99 - - - 99 - - 0028 -2 13363 13345 13205 156 138 -7.52 27 72 - - - 27 - 0029 +1 13129 13162 13404 273 240 -6.77 99 99 - - - - - +1 13405 13423 13659 252 234 -0.59 0 0 - - 99 - - +1 14017 14119 14286 267 165 -1.11 0 0 - - 99 - - -2 14515 14506 14240 273 264 -7.79 0 - - 0 99 0 - +3 14226 14334 14519 291 183 -10.56 0 - - 0 99 0 - 0030 -1 14634 14592 13342 1290 1248 10.40 99 - - - 99 - - 0031 +2 14453 14453 14704 249 249 -5.30 99 - 99 - - - - 0032 +1 14773 14785 15018 243 231 5.44 99 99 - - - - - 0033 -1 15057 15045 14896 159 147 -5.44 99 - - - 99 - - 0034 -2 15184 15169 14963 219 204 -1.93 99 - - - - 99 - -2 15364 15337 15188 174 147 -5.90 0 - - 99 - 0 - 0035 +3 14970 15015 15482 510 465 6.66 99 - - 99 - - - -2 16069 16030 15887 180 141 -2.29 0 - 99 - - 0 - -1 16221 16194 16051 168 141 1.26 0 - 99 - 0 - - -2 16390 16375 16076 312 297 2.44 0 - 99 - - 0 - 0036 +2 15719 15770 16744 1023 972 9.41 99 - 99 - - - - -2 16795 16645 16403 390 240 -4.27 0 - 99 - - 0 - +1 16852 16855 17058 204 201 -1.47 0 0 99 - 0 0 - -1 17073 17052 16777 294 273 1.42 0 - 99 - 0 - - +3 16980 17010 17132 150 120 -9.04 0 - 99 0 - 0 - +1 17059 17062 17184 123 120 -12.16 0 0 99 - - 0 - -2 17419 17101 16811 606 288 -4.47 0 - 99 - - 0 - +3 17388 17388 17519 129 129 -10.64 0 - 99 0 - - 0 -3 17561 17555 17352 207 201 -8.18 0 - 99 - - - 0 -1 17673 17658 17479 192 177 1.83 0 - 99 - 0 - - -1 17859 17847 17713 144 132 2.25 0 - 99 - 0 - - -2 17893 17863 17717 174 144 -1.52 0 - 99 - 0 0 - -3 18137 18071 17943 192 126 -12.43 0 0 99 - - 0 0 -2 18163 18046 17894 267 150 -2.14 0 0 99 - - 0 - +3 18021 18132 18359 336 225 -8.02 0 - 99 0 - - - -2 18391 18379 18164 225 213 -3.95 0 - 99 - - 0 - -3 18404 18377 18219 183 156 -9.84 0 - 99 - - 0 0 +3 18513 18612 18746 231 132 -5.95 0 - 99 0 - 0 - -1 19023 18990 18802 219 186 -0.00 0 - 99 - 0 0 - -3 19229 19214 19071 156 141 -11.51 0 - 99 - - 0 0 -1 19248 19248 19087 159 159 -0.27 0 - 99 - 0 0 - 0037 -2 19315 19012 18392 921 618 -3.19 0 - 99 - - 0 - -2 19684 19672 19511 171 159 1.47 0 - 99 - - 0 0 -3 19790 19649 19335 453 312 -10.42 0 - 99 - - - 0 -1 19833 19827 19672 159 153 -0.63 0 - 99 - 0 - - 0038 +2 16781 16784 19897 3114 3111 15.15 99 - 99 - - - - 0039 -2 19957 19921 19781 174 138 -3.77 99 - - - - 99 - 0040 +3 19917 19926 20168 249 240 -6.96 99 - 0 99 - - - 0041 -1 20208 20205 20041 165 162 -6.05 99 - 0 - 99 - -