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_macacae.result/NZ_UGTF010000021.100.AOI_01.fna /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Porphyromonas_macacae.result/GLIMMER.icm /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Porphyromonas_macacae.result/NZ_UGTF010000021.100.AOI_01 Sequence file = /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Porphyromonas_macacae.result/NZ_UGTF010000021.100.AOI_01.fna Number of sequences = 1 ICM model file = /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Porphyromonas_macacae.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_UGTF010000021.100.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 +1 25 43 210 183 165 3.02 0 0 0 - - - 99 +2 47 86 295 246 207 -1.48 0 - 0 0 - - 99 +3 75 84 317 240 231 0.14 0 - - 0 - - 99 +3 369 372 521 150 147 -2.60 0 0 - 0 - - 99 +1 361 418 555 192 135 -5.17 0 0 0 - - - 99 0001 +2 398 431 595 195 162 -1.27 99 - 99 - - - - +3 741 756 878 135 120 5.78 0 0 0 0 99 - - +1 592 778 915 321 135 0.74 0 0 - - 99 - - -3 1352 1322 1200 150 120 -6.67 0 - - - 99 - 0 +1 1216 1348 1509 291 159 4.09 0 0 - - 99 0 - -2 1513 1471 1346 165 123 -3.14 0 9 - - 90 0 - 0002 -1 1575 1521 529 1044 990 9.60 99 - - - 99 - - +3 1650 1650 1781 129 129 2.67 0 - 0 0 - 99 - +2 1622 1646 1810 186 162 0.78 0 - 0 - - 99 - +1 1702 1864 2112 408 246 -4.58 0 0 - - - 99 - 0003 -2 2626 2623 1607 1017 1014 9.85 99 - - - - 99 - 0004 +3 2379 2382 2678 297 294 6.46 99 - - 99 - - - +3 2835 2946 3140 303 192 4.40 0 - - 0 - 99 - +2 3278 3299 3514 234 213 -1.14 0 - 0 - - 99 - +1 3418 3448 3576 156 126 -0.75 0 0 - - - 99 - 0005 -2 3643 3637 2627 1014 1008 9.76 99 - - - - 99 - +3 3738 3741 3974 234 231 3.74 0 - 0 0 - - 99 0006 +2 3515 3623 3982 465 357 0.35 99 - 99 - - - - +2 4061 4061 4234 171 171 -8.00 0 - 0 0 - - 99 +3 4035 4422 4571 534 147 5.21 0 0 - 0 - - 99 +3 4572 4644 4868 294 222 -0.35 0 - - 0 - - 99 +3 4869 4872 5126 255 252 1.83 0 - - 0 - - 99 0007 -3 5306 5180 3630 1674 1548 10.83 99 - - - - - 99 +1 5302 5356 5547 243 189 -2.24 0 0 - - 99 - - +2 5369 5414 5659 288 243 6.00 0 - 0 - 99 - - -2 5833 5782 5534 297 246 -4.85 0 - - - 99 0 - +1 5548 5671 5934 384 261 0.75 0 0 - - 99 - - +2 5750 5753 5986 234 231 -0.16 0 - 0 - 99 - - 0008 -1 5991 5958 5266 723 690 9.87 99 - - - 99 - - +3 5967 5997 6245 276 246 -2.25 0 - - 0 - - 99 +1 6175 6271 6546 369 273 5.36 0 0 - - - - 99 0009 -3 6872 6866 5955 915 909 11.30 99 - - - - - 99 0010 +3 6288 6507 6995 705 486 -0.09 99 - - 99 - - - +2 6884 6935 7150 264 213 -4.58 0 - 0 - - 99 - -1 7353 7332 7177 174 153 -2.53 0 - - - 0 99 - +2 7184 7187 7357 171 168 -0.61 0 - 0 - 0 99 - +3 7323 7347 7568 243 219 -0.66 0 - - 0 - 99 - 0011 -2 7720 7684 6860 858 822 8.66 99 - - - - 99 - 0012 -2 8215 8179 7721 492 456 8.55 99 - - - - 99 - 0013 +2 8807 8822 8944 135 120 7.58 99 - 99 - - - - 0014 -3 9203 9098 8964 237 132 6.11 99 - - - - - 99 -2 9304 9295 9146 156 147 -2.83 0 99 - - 0 0 - -3 9338 9329 9204 132 123 0.50 0 99 - - 0 - 0 -1 9528 9249 9115 411 132 0.98 0 99 - - 0 - - 0015 +1 9043 9061 9804 759 741 8.95 99 99 - - - - - 0016 -3 9938 9926 9786 150 138 5.46 99 - - - - - 99 0017 +2 9911 9932 10108 195 174 8.11 99 - 99 - - - - +1 10120 10141 10305 183 162 2.80 0 0 - - 99 - - -3 10505 10505 10365 138 138 -1.70 0 0 - - 99 - 0 +1 10306 10324 10560 252 234 0.69 0 0 - - 99 - - +2 10463 10484 10606 141 120 -1.37 0 - 0 - 99 - - +2 10631 10634 10771 138 135 -0.98 0 0 0 - 99 - - +1 10561 10615 10797 234 180 0.83 0 0 - - 99 - - -3 10961 10946 10806 153 138 -1.10 0 - - - 99 - 0 0018 -1 11154 11136 9970 1182 1164 9.83 99 - - - 99 - - 0019 +1 11029 11029 11193 162 162 -0.02 99 99 - - - - - 0020 +2 11096 11117 11311 213 192 1.27 99 - 99 - - - - -3 11525 11498 11361 162 135 -1.72 0 0 - - 99 - 0 +2 11447 11459 11602 153 141 1.64 0 0 0 - 99 - - +1 11365 11365 11676 309 309 -2.18 0 0 - - 99 - - +3 11514 11628 11804 288 174 -2.82 0 - 1 0 98 - - +2 11603 11630 11836 231 204 5.85 0 - 0 - 99 - - -3 11942 11912 11769 171 141 -0.54 0 - - - 99 - 0 +1 11818 11863 12030 210 165 3.41 0 0 - - 99 - - +2 11915 11921 12112 195 189 4.56 0 - 0 - 99 - - 0021 -1 12177 12174 11155 1020 1017 11.01 99 - - - 99 - - 0022 -2 12379 12223 12101 276 120 2.52 99 - - - - 99 - -3 12446 12425 12303 141 120 2.35 0 0 - - 98 - 0 +3 12711 12840 12965 252 123 0.35 0 0 - 0 99 - - +1 12430 12829 12975 543 144 1.53 0 0 - - 99 - - +1 12976 13084 13248 270 162 -0.33 0 0 - - 99 - - 0023 -1 13374 13371 12187 1185 1182 9.41 99 - - - 99 - - +3 13212 13311 13442 228 129 0.20 7 - 92 7 - - - 0024 +2 13178 13220 13591 411 369 -0.05 99 - 99 - - - - +3 13512 13518 13643 129 123 3.70 0 - - 0 - - 99 0025 -3 14021 14021 13362 657 657 11.96 99 - - - - - 99 -1 14034 14025 13837 195 186 4.31 0 0 - - 0 - 99 0026 +1 13660 13717 14079 417 360 5.98 99 99 - - - - - 0027 +3 13926 14001 14285 357 282 -0.49 99 - - 99 - - - +1 15091 15094 15216 123 120 -0.44 0 0 - 0 99 - - 0028 -1 15255 15204 14080 1173 1122 5.86 99 - - - 99 - - 0029 +3 14985 15114 15305 318 189 -1.85 99 - - 99 - - - +1 15220 15238 15447 225 207 0.97 0 0 - - - - 99 -2 15586 15565 15428 156 135 -0.93 7 - - - - 7 92 +3 15516 15534 15701 183 165 1.24 0 - - 0 - - 99 +1 15946 15949 16077 129 126 -1.84 0 0 - 0 - - 99 0030 -2 16126 16111 15971 153 138 5.91 32 - - 4 - 32 63 +1 16096 16147 16275 177 126 2.73 1 1 - - - - 98 +3 16155 16203 16337 180 132 -6.18 0 - - 0 - - 99 +3 16476 16584 16730 252 144 -6.10 0 - - 0 - - 99 0031 -3 16790 16790 15201 1587 1587 4.09 99 - - - - - 99 0032 +1 16669 16738 17121 450 381 -1.94 99 99 - - - - - -3 17438 17348 17226 210 120 0.43 0 0 - - 99 - 0 +1 17122 17152 17634 510 480 1.29 0 0 - - 99 - - 0033 -1 17643 17610 16762 879 846 12.22 99 - - - 99 - - +2 17717 17735 17869 150 132 0.94 0 - 0 0 - 99 - -1 17916 17913 17788 126 123 0.39 0 - - 0 0 99 - +3 17739 17790 17957 216 165 2.37 0 - - 0 - 99 - +2 17921 17954 18106 183 150 -1.39 0 - 0 - - 99 - -3 18395 18293 18066 327 225 -2.59 0 - - - - 99 0 +2 18266 18278 18448 180 168 -0.91 0 - 0 - - 99 - +3 18324 18324 18542 216 216 3.42 0 - - 0 - 99 - 0034 -2 18685 18673 17654 1029 1017 7.49 99 - - - - 99 - 0035 +3 18543 18594 18722 177 126 -1.77 86 - 13 86 - - - 0036 -1 18900 18888 18724 174 162 4.25 94 - 5 - 94 - - -3 19205 19199 18999 204 198 -3.09 0 - 99 - - - 0 0037 -3 19394 19385 19206 186 177 3.55 55 - 44 - - - 55 +3 19287 19323 19478 189 153 3.05 0 - 99 0 - - - -1 19635 19635 19414 219 219 4.45 0 - 99 - 0 - - +3 19653 19668 19832 177 162 1.79 0 - 99 0 - 0 - -2 19981 19693 19547 432 144 3.65 11 - 88 - - 11 - -1 20001 20001 19759 240 240 0.84 0 - 99 - 0 - - -2 20272 20245 20099 171 144 4.77 0 0 99 - - 0 - 0038 +2 18581 18785 20368 1785 1581 6.30 99 - 99 - - - - 0039 +1 20050 20227 20451 399 222 -4.87 99 99 - - - - - +3 20433 20454 20597 162 141 4.75 0 - 99 0 0 - - 0040 -1 20604 20559 20347 255 210 4.06 99 - - - 99 - - -3 20648 20630 20490 156 138 2.48 0 - 99 - - - 0 +1 20551 20554 20724 171 168 -5.51 0 0 99 - - - - -2 20830 20818 20690 138 126 -0.88 0 - 99 - - 0 - 0041 +2 20369 20372 20950 579 576 8.86 99 - 99 - - - - 0042 -3 21128 21071 20913 213 156 11.94 99 - - - - - 99