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_Porphyromonadaceae/Porphyromonas_gingivalis.result/NZ_NSLV010000201.1676.AOI_01.fna /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Porphyromonas_gingivalis.result/GLIMMER.icm /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Porphyromonas_gingivalis.result/NZ_NSLV010000201.1676.AOI_01 Sequence file = /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Porphyromonas_gingivalis.result/NZ_NSLV010000201.1676.AOI_01.fna Number of sequences = 1 ICM model file = /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Porphyromonas_gingivalis.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_NSLV010000201.1676.AOI_01 Sequence length = 14880 ----- Start ----- --- Length ---- ----------- Scores ------------ ID Frame of Orf of Gene Stop of Orf of Gene Raw InFrm F1 F2 F3 R1 R2 R3 +2 95 224 403 306 177 -4.12 0 99 0 0 - - - 0001 +3 222 339 464 240 123 -3.55 99 0 - 99 - - - -2 517 499 365 150 132 -10.75 0 99 - - - 0 - 0002 -3 611 605 465 144 138 -3.18 16 83 - - - - 16 0003 +1 7 472 762 753 288 -2.97 99 99 - - - - - -1 963 870 724 237 144 -6.83 0 - 99 - 0 - - -1 1152 1143 964 186 177 -9.92 0 - 0 - 0 99 - -1 1353 1275 1153 198 120 -10.95 0 - 0 0 0 99 0 -1 1554 1476 1354 198 120 -11.88 0 - 0 0 0 99 0 0004 +2 677 713 1984 1305 1269 2.08 0 - 0 - - 99 - +2 1985 1991 2227 240 234 1.45 0 - 0 - - 99 - +3 2310 2313 2465 153 150 1.36 0 - - 0 - 99 - 0005 -2 2488 2488 734 1752 1752 6.82 99 - - - - 99 - +1 2473 2491 2613 138 120 1.94 0 0 - - 99 - - +1 2614 2617 2778 162 159 0.56 0 0 - - 99 - - +1 2779 2824 2958 177 132 -2.32 0 0 0 - 99 - - +2 2819 2846 2974 153 126 -4.12 1 - 1 - 98 - - 0006 -2 3097 3082 2945 150 135 0.10 99 - - - 0 99 - 0007 +2 2981 2993 3127 144 132 -1.94 99 - 99 - 0 - - +2 3128 3131 3253 123 120 -11.99 0 - 0 77 0 - 22 0008 -1 3285 2922 2485 798 435 4.50 99 - - - 99 - - 0009 +3 3033 3072 3326 291 252 2.95 63 - - 63 - - 36 +1 3184 3319 3483 297 162 -6.85 0 0 0 - - - 99 +2 3314 3365 3523 207 156 -8.59 0 - 0 - - - 99 -2 3583 3583 3458 123 123 -5.71 0 - - 48 - 0 51 +3 3447 3480 3605 156 123 5.55 1 - - 1 - - 98 +1 3709 3736 3897 186 159 -1.46 0 0 - 1 - - 98 +3 3657 3660 3917 258 255 2.10 0 - - 0 - - 99 -2 4225 4186 4043 180 141 -10.22 0 - - 80 - 0 19 +3 3918 4005 4322 402 315 2.30 1 - - 1 - - 98 0010 -3 4352 4262 3045 1305 1215 3.99 99 - - - - - 99 +3 4725 4755 4883 156 126 -0.43 0 - 0 0 - 99 0 0011 -2 5044 5014 4325 717 687 11.22 99 - 0 - - 99 - 0012 +2 4274 4535 5056 780 519 1.11 99 - 99 - - - - 0013 +3 4884 4899 5081 195 180 -1.15 99 - - 99 - - - 0014 +2 5087 5099 5233 144 132 -7.12 23 - 23 76 - - - 0015 +3 5082 5112 5243 159 129 -6.51 99 - - 99 - - - 0016 -1 5376 5367 5230 144 135 -1.57 37 0 62 - 37 - - 0017 +1 5164 5179 5424 258 243 -3.72 99 99 - - - - - +3 5292 5316 5444 150 126 -4.86 0 - 99 0 - - - +3 5445 5532 5690 243 156 -6.01 0 0 99 0 - 0 - +1 5425 5509 5712 285 201 -9.42 0 0 99 - - 0 - -1 5805 5673 5545 258 126 -5.17 0 0 99 0 0 0 - 0018 +2 5234 5354 5854 618 498 7.36 99 - 99 - - - - -2 5890 5734 5387 501 345 0.31 0 - 99 - - 0 - 0019 +1 5719 5851 5976 255 123 -2.18 30 30 69 - - - - -1 6021 5985 5860 159 123 -4.87 2 - 97 - 2 - - 0020 +2 5855 5978 6172 315 192 4.70 99 - 99 - - - 0 -3 6191 6062 5883 306 177 -3.41 0 - 99 - - - 0 0021 -2 6277 6241 6089 186 150 5.92 99 - - - - 99 - +3 6366 6369 6491 123 120 -10.09 0 - 0 0 99 - - 0022 -1 6510 6414 6247 261 165 0.10 99 - - - 99 - - 0023 +2 6344 6428 6673 327 243 -2.92 99 - 99 - - - - 0024 -2 6682 6628 6434 246 192 2.91 99 - 0 - - 99 - -2 7006 6844 6683 321 159 -2.32 0 - - 99 - 0 - +1 6877 6919 7053 174 132 -9.86 0 0 0 99 - - 0 +2 6824 6866 7060 234 192 -10.30 0 - 0 99 - - 0 -2 7159 7147 7007 150 138 -1.44 0 - - 99 - 0 0 +2 7061 7073 7216 153 141 -4.89 0 - 0 99 - - 0 -2 7294 7288 7160 132 126 1.66 0 - - 99 - 0 0 -2 7492 7486 7355 135 129 -3.28 0 - - 99 - 0 0 -1 7581 7521 7396 183 123 -10.21 0 - - 99 0 - 0 -2 7888 7825 7703 183 120 -3.03 0 - 0 99 - 0 0 +2 7865 7892 8068 201 174 -7.83 0 - 0 99 - - 0 +1 8095 8137 8283 186 144 -6.65 0 0 - 93 - - 6 0025 -3 8414 8387 6732 1680 1653 0.75 0 - - 99 - - 0 +2 8309 8360 8488 177 126 -7.97 0 - 0 99 - - - 0026 +3 6510 6519 8573 2061 2052 9.77 99 - - 99 - - - 0027 +2 8489 8558 8758 267 198 -8.72 99 - 99 - - - - -3 8843 8783 8634 207 147 2.60 0 - - 99 - - 0 +1 8872 8890 9015 141 123 -10.11 0 0 - 99 0 - - -2 9217 9217 9080 135 135 -3.51 0 - - 99 - 0 0 0028 +3 8574 8658 9284 708 624 8.52 99 - - 99 - - - -3 9380 9215 9033 345 180 3.16 0 - - 99 - - 0 0029 +2 9185 9221 9394 207 171 -3.86 99 0 99 - - - - +2 9395 9410 9544 147 132 -5.56 0 4 0 - 95 - - -3 9689 9674 9495 192 177 -5.53 0 11 - - 88 - 0 +1 9145 9361 9693 546 330 0.34 0 0 - - 99 - - -2 9745 9718 9593 150 123 -10.12 0 - - - 99 0 - 0030 -1 9768 9642 9346 420 294 3.88 99 0 - - 99 - - 0031 +2 9608 9626 9772 162 144 -2.39 37 - 37 - 62 - - 0032 -3 9968 9923 9732 234 189 -4.08 99 - - - - - 99 +2 10028 10088 10246 216 156 -6.00 0 - 0 0 - - 99 +3 9888 10086 10298 408 210 2.28 0 - - 0 - - 99 +2 10247 10301 10480 231 177 -9.20 0 - 0 - - - 99 +1 10456 10597 10779 321 180 -0.11 0 0 - - 0 - 99 -1 10785 10731 10510 273 219 -6.16 0 0 - - 0 - 99 -2 10885 10885 10760 123 123 -9.03 0 - - 0 - 0 99 +1 10939 10963 11088 147 123 0.43 0 0 0 0 0 - 99 +3 10890 10986 11117 225 129 0.27 0 - - 0 - - 99 0033 -3 11135 11135 9969 1164 1164 8.75 99 - - - - - 99 +1 11089 11188 11316 225 126 -5.14 0 0 - 0 0 - 99 -2 11548 11545 11423 123 120 -6.90 0 0 - 5 - 0 94 +1 11317 11434 11718 399 282 -4.28 0 0 - 0 - - 99 -1 11823 11787 11464 357 321 -6.68 0 - - 0 0 - 99 0034 -3 12158 12149 11154 1002 993 4.34 99 - - 0 - - 99 0035 +3 11145 11157 12344 1197 1185 0.91 99 - - 99 - - - +1 12223 12238 12408 183 168 -3.97 0 0 - - - - 99 +2 12326 12368 12499 171 129 -7.25 0 - 0 8 - - 91 -1 12726 12696 12457 267 237 -9.73 0 - - 1 0 - 98 -2 12805 12778 12650 153 126 -6.65 0 - - 0 - 0 99 +1 12736 12742 12870 132 126 -6.48 0 0 0 0 - - 99 +2 12665 12701 12886 219 183 -9.07 0 - 0 0 - - 99 +3 12345 12435 12929 582 492 1.01 0 - - 0 - - 99 +1 12904 12943 13068 162 123 -6.49 0 0 - 0 - - 99 +3 12930 13122 13289 357 165 4.40 0 0 - 0 0 - 99 +1 13069 13144 13320 249 174 -5.59 0 0 - - 0 - 99 +2 13184 13184 13336 150 150 -7.34 0 - 0 - 0 - 99 0036 -3 13430 13334 12213 1215 1119 4.52 99 - - - - - 99 +2 13463 13619 13783 318 162 -0.33 0 1 0 - 98 - - +3 13722 13737 13877 153 138 -10.66 0 0 - 0 99 - - +1 13576 13594 13938 360 342 2.29 0 0 - - 99 - - +3 13932 14022 14147 213 123 -4.65 0 - 27 0 72 - - 0037 -1 14253 13923 13348 903 573 3.21 99 - - - 99 - - 0038 +2 13988 14003 14317 327 312 1.13 99 - 99 - - - - 0039 -3 14393 14372 14175 216 195 -5.15 99 - - - - - 99 0040 -1 14457 14415 14254 201 159 -1.48 40 51 - - 40 7 - 0041 -2 14536 14506 14240 294 264 -2.20 99 - - - - 99 - 0042 -3 14879 14846 14715 162 129 -7.51 93 6 - - - - 93