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_QRUI010000031.249.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_QRUI010000031.249.AOI_01 Sequence file = /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_plebeius.result/NZ_QRUI010000031.249.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_QRUI010000031.249.AOI_01 Sequence length = 20252 ----- Start ----- --- Length ---- ----------- Scores ------------ ID Frame of Orf of Gene Stop of Orf of Gene Raw InFrm F1 F2 F3 R1 R2 R3 +3 3 45 371 366 324 3.68 0 - - 0 - 99 - +2 59 92 427 366 333 2.92 0 - 0 - - 99 0 -3 461 458 78 381 378 -4.80 0 - - - - 99 0 +1 466 595 735 267 138 -2.69 0 0 - - 99 0 - -2 856 757 578 276 177 -9.75 0 - - - 99 0 - +2 935 1028 1159 222 129 2.36 0 - 0 - 99 0 - +3 1344 1389 1517 171 126 -10.53 0 - - 0 99 0 - -2 1531 1462 1262 267 198 -7.26 0 - - - 99 0 - +1 1495 1576 1731 234 153 0.92 0 0 - - 99 0 - 0001 -1 1995 1893 403 1590 1488 10.77 99 - - - 99 - - 0002 +1 1747 1840 2067 318 225 1.84 99 99 - - - - - +3 1938 1944 2120 180 174 1.96 0 - - 0 - - 99 +1 2068 2146 2274 204 126 4.40 0 0 - - - - 99 +1 2275 2428 2589 312 159 0.80 0 0 - 0 - - 99 +2 2453 2498 2632 177 132 -11.12 0 - 0 0 - - 99 +3 2409 2517 2768 357 249 4.04 0 - - 0 - - 99 0003 -3 2834 2798 1908 924 888 12.11 99 - - - - - 99 +1 2857 2857 2997 138 138 -5.01 0 0 0 - 99 - - +2 2831 3044 3202 369 156 -2.11 0 - 0 - 99 - - -3 3398 3374 3222 174 150 1.36 0 - - - 99 - 0 +3 3435 3585 3728 291 141 -8.81 0 - - 0 99 - - -3 3785 3785 3660 123 123 -4.11 0 0 - - 99 - 0 +1 3928 3934 4197 267 261 3.03 0 0 - - 99 - - 0004 -1 4212 4056 2827 1383 1227 11.61 99 - - - 99 - - -3 4322 4271 4143 177 126 -0.49 0 - 99 - - - 0 -2 4549 4378 4187 360 189 2.79 0 - 99 - - 0 - +1 4528 4594 4809 279 213 -1.79 0 0 99 - - - - -2 4852 4822 4697 153 123 4.15 3 - 96 - - 3 - -2 5077 5026 4853 222 171 -5.86 0 - 99 - - 0 - -3 5084 5081 4893 189 186 -10.34 0 - 99 - - 0 0 0005 +2 4133 4151 5149 1014 996 8.37 99 - 99 - - - - 0006 +3 5118 5124 5273 153 147 5.46 99 - - 99 - - 0 -3 5402 5255 5121 279 132 0.01 0 - - 99 - - 0 +3 5274 5400 5525 249 123 -3.83 0 - - 0 - 99 - +3 5646 5664 5786 138 120 4.77 0 - - 0 - 99 0 -3 5960 5636 5403 555 231 -5.45 0 - - - - 99 0 -1 5973 5964 5824 147 138 -7.54 0 - 0 - 0 99 0 +2 5759 5849 5980 219 129 1.46 0 - 0 - - 99 - -3 6227 6212 6063 162 147 -10.65 0 - - - - 99 0 +3 6123 6126 6269 144 141 0.88 0 - 0 0 0 99 - -1 6279 6261 6115 162 144 -13.92 0 - 0 - 0 99 - 0007 -2 6577 6529 5165 1410 1362 9.60 99 - - - - 99 - 0008 +2 6284 6311 6589 303 276 -0.91 99 - 99 - - - - 0009 +3 6429 6498 6626 195 126 0.44 99 - - 99 - - - +2 6665 6728 7291 624 561 3.10 0 - 0 - - 99 - -1 7392 7371 7231 159 138 -1.45 0 - - 0 0 99 - +3 6786 6885 7475 687 588 2.21 0 - - 0 - 99 - -3 7697 7622 7497 198 123 -13.34 0 0 - - - 99 0 +1 7363 7492 7704 339 210 -5.33 0 0 - - - 99 - +2 7541 7643 8161 618 516 3.55 0 - 0 - - 99 - +3 7872 7935 8204 330 267 1.62 0 - - 0 - 99 - +1 8080 8146 8268 186 120 -6.34 0 0 - - - 99 - -1 8409 8409 8242 165 165 -6.48 0 - - - 0 99 - +3 8367 8373 8510 141 135 -4.18 0 - 0 0 - 99 - +3 8511 8511 8660 147 147 -1.54 0 - 0 0 - 99 - +3 8661 8664 8831 168 165 0.60 0 - 0 0 - 99 - -1 8913 8880 8668 243 210 -2.71 0 - 0 - 0 99 - +2 8357 8801 8980 621 177 4.64 0 - 0 - - 99 - +1 8965 8977 9102 135 123 -10.96 0 0 - - - 99 - 0010 -2 9289 9268 6650 2637 2616 8.28 99 - - - - 99 - 0011 +1 9322 9337 9483 159 144 1.14 99 99 - - 0 - 0 0012 -3 9602 9401 9252 348 147 -3.91 99 - - - - - 99 +1 9484 9502 9651 165 147 -3.38 0 0 - 99 - 0 - -2 9682 9616 9494 186 120 1.42 0 0 0 99 - 0 - +1 9766 9814 9939 171 123 -9.16 0 0 - 99 0 - - -2 9997 9964 9833 162 129 1.31 0 - - 99 0 0 - -1 10044 9927 9790 252 135 -7.89 0 0 - 99 0 - - -3 10238 10115 9924 312 189 -0.35 0 - - 99 - - 0 0013 +3 9381 9402 10367 984 963 10.60 99 - - 99 - - - -3 10619 10616 10461 156 153 -0.87 0 - - 99 - - 0 -2 10717 10702 10571 144 129 -1.38 0 - - 99 - 0 - 0014 +3 10368 10389 10730 360 339 8.68 99 - - 99 - - - +3 10863 11034 11246 381 210 -2.67 0 - - 0 - - 99 +1 11152 11182 11346 192 162 -2.50 0 0 - - - - 99 +3 11247 11283 11426 177 141 -2.80 0 - - 0 0 - 99 -1 11493 11463 11248 243 213 -7.68 0 - - - 0 - 99 +1 11347 11359 11511 162 150 3.67 0 0 - - - - 99 +3 11427 11463 11597 168 132 2.53 0 - - 0 - - 99 0015 -3 11603 11588 10941 660 645 10.43 99 - - - - - 99 +2 12041 12101 12235 192 132 5.17 0 - 0 - 99 0 - +2 12236 12242 12370 132 126 2.63 0 0 0 - 99 - - +1 12190 12232 12645 453 411 4.14 0 0 - - 99 - - 0016 -1 12675 12663 11623 1050 1038 12.27 99 - - - 99 - - +3 12543 12747 12875 330 126 -4.58 0 - - 0 99 - - -2 12979 12913 12773 204 138 -6.68 0 - - - 99 0 - +3 12876 12876 13013 135 135 -5.10 0 0 - 0 99 - - +1 12880 13000 13227 345 225 -0.69 0 0 - - 99 0 - +2 13034 13106 13336 300 228 0.27 0 - 0 - 99 0 - -3 13424 13367 13212 210 153 -8.83 0 - - - 99 - 0 +1 13228 13396 13545 315 147 4.95 0 0 - - 99 - - 0017 -1 13551 13533 12676 873 855 9.33 99 - - - 99 - - +2 13754 13784 13915 159 129 3.62 0 0 0 - - 99 - +1 13768 13771 13920 150 147 -4.60 0 0 - - - 99 - 0018 -2 14245 14188 13565 678 621 7.92 99 - - - - 99 - 0019 +1 14278 14284 14433 153 147 2.38 99 99 - - - - - 0020 +2 14306 14318 14479 171 159 3.07 99 - 99 - - - - 0021 +1 14440 14482 14613 171 129 4.75 99 99 - - - - - 0022 -2 14767 14764 14639 126 123 0.19 77 - - - 22 77 - +3 14943 14955 15089 144 132 -3.28 0 99 - 0 0 - - -3 15281 15269 15093 186 174 -2.67 0 99 - - 0 - 0 -1 15354 15114 14920 432 192 -0.13 0 99 - - 0 - - -2 15379 15343 15209 168 132 -2.61 0 99 - - 0 0 - +2 15251 15275 15442 189 165 -2.88 0 99 0 - - - - -3 15665 15461 15282 381 177 0.34 0 99 - - - - 0 -1 15735 15546 15355 378 189 -1.10 0 99 - - 0 - 0 -2 15802 15754 15608 192 144 -3.74 0 99 - - - 0 - -1 16053 16035 15790 261 243 0.73 0 99 - - 0 - - +2 16142 16145 16291 147 144 6.19 2 97 2 - 0 - - 0023 +1 14893 14935 16296 1401 1359 7.08 99 99 - - - - - -1 16296 16269 16138 156 129 3.29 0 99 0 - 0 - - 0024 -3 16574 16559 16398 174 159 3.28 99 - - 0 - - 99 -1 17091 17076 16837 252 237 -1.03 0 99 - - 0 - 0 -3 17108 17042 16575 531 465 3.96 0 99 - - - - 0 0025 +1 16414 16426 17112 696 684 12.00 99 99 - - - - - -3 17312 17243 17109 201 132 -0.98 0 - - 99 - 0 0 -2 17359 17305 17099 258 204 -2.26 0 - - 99 - 0 - -3 17765 17591 17388 375 201 -1.22 0 - - 99 - - 0 0026 +3 17088 17118 17783 693 663 10.47 99 - - 99 - - - +1 17680 17689 17820 138 129 -3.28 0 0 - - 16 83 - -1 17844 17676 17536 306 138 -12.50 0 - - 99 0 - 0 0027 +2 17780 17786 18244 462 456 7.97 99 - 99 - - 0 - 0028 -2 18253 18061 17684 567 375 0.82 99 - - - - 99 - +1 18472 18517 18642 168 123 -8.92 0 0 0 - - 99 - +2 18245 18482 18646 399 162 1.60 0 - 0 - - 99 - +3 18702 18741 18875 171 132 2.93 0 - - 0 - 99 0 +2 18806 18911 19039 231 126 -6.94 0 - 0 - - 99 0 -3 19277 19172 19047 228 123 -9.45 0 - 0 - - 99 0 +3 19470 19470 19652 180 180 -4.00 0 - 0 0 - 99 - -3 19685 19661 19521 162 138 -7.80 0 - 0 - - 99 0 0029 +2 19040 19055 19870 828 813 1.35 0 - 0 - - 99 - +3 19728 19758 19907 177 147 -3.61 0 - - 0 - 99 - -1 20022 19998 19846 174 150 -11.76 0 - - - 0 99 - 0030 -2 20251 20239 18335 1914 1902 11.62 99 - - - - 99 -