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_catoniae.result/NZ_KB2910321.7.AOI_01.fna /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Porphyromonas_catoniae.result/GLIMMER.icm /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Porphyromonas_catoniae.result/NZ_KB2910321.7.AOI_01 Sequence file = /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Porphyromonas_catoniae.result/NZ_KB2910321.7.AOI_01.fna Number of sequences = 1 ICM model file = /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Porphyromonas_catoniae.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_KB2910321.7.AOI_01 Sequence length = 21137 ----- Start ----- --- Length ---- ----------- Scores ------------ ID Frame of Orf of Gene Stop of Orf of Gene Raw InFrm F1 F2 F3 R1 R2 R3 0001 +1 10 13 153 141 138 -8.14 99 99 - - - - - 0002 -1 387 381 250 135 129 -0.42 99 - - - 99 - - -2 1198 1147 1001 195 144 -2.73 0 - - 99 - 0 - -3 1241 1187 1017 222 168 3.13 0 - - 99 - 0 0 +1 1357 1363 1557 198 192 -12.54 0 0 - 99 - - - -1 1842 1839 1672 168 165 -10.01 0 - - 99 0 - - -2 2044 2038 1892 150 144 -6.16 0 - - 99 - 0 - +1 2008 2074 2214 204 138 -1.91 0 0 - 99 - - 0 -3 2306 2258 1998 306 258 3.67 0 - - 99 - - 0 -2 2386 2335 2204 180 129 -12.84 0 - - 99 - 0 - +1 2509 2518 2643 132 123 -2.53 0 0 - 98 0 0 1 -3 2693 2639 2457 234 180 0.93 0 - - 99 - - 0 -2 2707 2629 2489 216 138 -11.56 0 - - 99 - 0 0 -3 3281 3200 2868 411 330 -0.37 0 - - 99 - - 0 +1 3205 3220 3345 138 123 -2.61 4 4 - 95 - - - 0003 +3 933 1008 3509 2574 2499 6.82 99 - - 99 - - - -1 3510 3417 3265 243 150 -9.36 0 - - 99 0 - - 0004 -3 3635 3563 3417 216 144 -5.57 99 - - - - - 99 0005 -3 3815 3800 3669 144 129 -8.63 99 - - - - - 99 +2 3794 3794 3922 126 126 -1.50 0 0 0 - - 99 - +2 4235 4241 4405 168 162 -1.67 0 - 0 - - 99 0 -3 4406 4397 4200 204 195 -8.21 0 - - - - 99 0 +3 4290 4296 4424 132 126 -4.98 0 - - 0 - 99 - +2 4406 4487 4663 255 174 3.94 0 - 0 - - 99 0 +3 4974 4983 5105 129 120 -2.25 0 - 0 0 - 99 - 0006 -2 5155 5134 3707 1446 1425 11.69 99 - - - - 99 - +2 5117 5330 5461 342 129 -6.19 0 - 0 - 0 - 99 0007 -3 5681 5624 5172 507 450 5.03 99 - - - - - 99 -1 5709 5571 5251 456 318 -6.60 0 - - - 0 - 99 +3 5793 5802 5936 141 132 -0.02 0 - - 0 - 99 - +2 5879 5963 6100 219 135 0.31 0 - 0 - - 99 - 0008 -2 6124 6064 5645 477 417 7.64 99 - - - - 99 - 0009 +3 6057 6081 6269 210 186 -3.87 99 - - 99 - - - 0010 -1 6882 6867 6223 657 642 9.43 99 - - - 99 - - 0011 +2 6755 6755 6898 141 141 0.56 99 - 99 - - - - +3 7047 7098 7289 240 189 2.53 0 - - 0 - - 99 +3 7290 7302 7490 198 186 0.83 0 - - 0 - 0 99 -2 7492 7366 7217 273 147 -8.28 0 - - - - 0 99 0012 -3 7739 7721 6918 819 801 7.60 99 - - - - - 99 -2 8107 8104 7871 234 231 -8.15 0 - - - - 0 99 +3 8004 8025 8228 222 201 3.03 0 - - 0 - - 99 0013 -3 8300 8285 7740 558 543 8.48 99 - - - - - 99 -3 8471 8462 8340 129 120 -7.48 0 - - - 99 - 0 0014 -1 8646 8610 8317 327 291 8.69 99 - - - 99 - - 0015 +2 8402 8564 8692 288 126 2.01 99 - 99 - - - - 0016 -1 8928 8820 8662 264 156 -9.66 99 - - - 99 - - +2 9380 9470 9598 216 126 -9.01 0 99 0 - 0 - 0 -3 9608 9470 9348 258 120 -4.69 0 99 - - 0 - 0 -3 9773 9752 9609 162 141 -1.22 0 99 - - 0 - 0 -1 9834 9783 9274 558 507 2.21 0 99 - - 0 - - 0017 +1 8899 8926 9972 1071 1044 10.89 99 99 - - - - - +2 10007 10112 10279 270 165 -5.23 0 - 0 99 - - - -3 10514 10490 10302 210 186 8.01 0 - - 99 - - 0 +1 10393 10411 10581 186 168 -7.37 0 0 - 99 - - - -2 10858 10807 10682 174 123 -2.87 0 - - 99 - 0 0 -3 10877 10862 10593 282 267 4.21 0 - - 99 - - 0 -1 10929 10929 10729 198 198 -10.36 0 - - 99 0 - - +2 10751 10790 10951 198 159 -9.67 0 - 0 99 - - - +1 10942 10948 11097 153 147 -6.11 0 0 - 99 - - - 0018 +3 9954 9987 11150 1194 1161 11.66 99 - - 99 - - - -1 11322 11295 11167 153 126 10.61 2 97 0 - 2 - - -2 11422 11395 11222 198 171 -5.03 0 99 0 - - 0 - +2 11171 11351 11488 315 135 -10.19 0 99 0 - 0 - 0 -1 11571 11544 11323 246 219 1.21 0 99 - - 0 - - +2 11576 11600 11755 177 153 -5.50 0 99 0 - - - - +2 12116 12116 12337 219 219 -12.26 0 99 0 - - - - -1 12660 12558 12388 270 168 7.29 0 99 - - 0 - - 0019 +1 11131 11137 12720 1587 1581 11.04 99 99 - - - - - -3 13271 13265 13116 153 147 6.33 0 - - 99 - - 0 -1 13779 13614 13348 429 264 -0.40 0 - - 99 0 - - +1 13669 13699 13848 177 147 -5.09 0 0 - 99 - - 0 -3 14105 14090 13962 141 126 0.36 0 0 - 99 - - 0 0020 +3 13056 13068 14165 1107 1095 10.66 99 - - 99 - - - -1 14343 14274 14149 192 123 -6.60 0 - - - 0 - 99 0021 -3 14354 14330 14136 216 192 0.17 99 - - - - - 99 -3 14840 14762 14610 228 150 -1.83 0 99 - - - - 0 +2 14816 14825 14953 135 126 -3.26 0 99 0 - 0 - - 0022 +1 14155 14176 15048 891 870 14.76 99 99 - - - - - -1 15057 15042 14812 243 228 5.03 0 99 - - 0 - - 0023 -2 15166 15100 14975 189 123 -6.21 99 - - - - 99 - -3 15425 15266 15141 282 123 -1.68 0 - 99 - - - 0 -2 15724 15673 15530 192 141 2.87 0 - 99 - - 0 - -1 16275 16161 15961 312 198 -1.88 0 0 99 - 0 - - -3 16430 16346 16158 270 186 -0.86 0 - 99 - - - 0 -2 16516 16453 16229 285 222 3.18 0 - 99 - - 0 - 0024 +2 15023 15053 16603 1578 1548 8.58 99 - 99 - - - - +1 16792 16888 17010 216 120 -8.94 0 0 - 99 - 0 - -2 17053 16942 16817 234 123 -8.34 0 0 - 99 0 0 - -2 17212 17212 17072 138 138 -4.50 0 - - 99 - 0 0 0025 +3 16572 16575 17216 642 639 9.49 99 - - 99 - - - +1 17188 17218 17382 192 162 -14.91 0 0 - 99 - - - -3 17579 17570 17286 291 282 3.36 0 - - 99 - - 0 0026 +3 17217 17244 17636 417 390 7.57 99 - - 99 - - - 0027 +1 17566 17605 17754 186 147 -4.62 99 99 - - - - - +3 17637 17751 17876 237 123 -6.30 0 - 99 0 - - - -1 17979 17961 17782 195 177 -4.99 0 - 99 - 0 - - -2 18094 18055 17930 162 123 -1.83 0 - 99 - - 0 0 -1 18411 18114 17980 429 132 -3.76 0 - 99 - 0 - - +3 18327 18396 18527 198 129 -11.63 0 - 99 0 - 0 - +3 18528 18528 18662 132 132 -17.88 0 - 99 0 - 0 - -2 18679 18487 18221 456 264 0.43 0 - 99 - - 0 - 0028 +2 17630 17645 18955 1323 1308 9.38 99 - 99 - - - - 0029 +1 18712 18820 18963 249 141 -7.62 99 99 - - - - - 0030 -3 19229 19154 18960 267 192 -9.03 28 71 - - - - 28 0031 +1 18964 19111 19233 267 120 -5.90 40 40 5 - 27 24 1 +2 19088 19220 19342 252 120 -7.16 0 - 0 99 0 0 - 0032 -1 19350 19248 19099 249 147 -8.29 54 - 11 - 54 34 - 0033 -2 19366 19276 19091 273 183 -6.77 96 - 3 - - 96 - 0034 -3 19430 19403 19263 165 138 -10.61 99 - - - - - 99 -1 19638 19554 19351 285 201 -3.94 0 - 99 - 0 - - -2 19843 19639 19379 462 258 0.36 0 - 99 - 0 0 - -2 20212 20014 19892 318 120 6.72 0 - 99 0 - 0 - -1 20535 20481 20335 198 144 -0.58 0 - 99 - 0 0 0 -2 20722 20590 20249 471 339 2.79 0 - 99 - - 0 - +3 20598 20601 20729 129 126 -15.30 0 - 99 0 0 - - -1 20745 20679 20536 207 141 -5.47 0 - 99 - 0 0 - -1 20892 20889 20746 144 141 -12.05 0 - 97 - 0 2 - -2 20926 20926 20723 201 201 5.20 0 - 99 - - 0 - 0035 +2 19343 19361 21001 1656 1638 10.62 99 - 99 - - - -