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_endodontalis.result/NZ_ACNN010000311.6.AOI_01.fna /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Porphyromonas_endodontalis.result/GLIMMER.icm /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Porphyromonas_endodontalis.result/NZ_ACNN010000311.6.AOI_01 Sequence file = /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Porphyromonas_endodontalis.result/NZ_ACNN010000311.6.AOI_01.fna Number of sequences = 1 ICM model file = /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Porphyromonas_endodontalis.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_ACNN010000311.6.AOI_01 Sequence length = 14256 ----- Start ----- --- Length ---- ----------- Scores ------------ ID Frame of Orf of Gene Stop of Orf of Gene Raw InFrm F1 F2 F3 R1 R2 R3 -2 403 403 236 165 165 -4.09 0 - 87 - 12 0 - +1 250 262 462 210 198 1.43 0 0 99 - 0 - - 0001 -1 498 369 226 270 141 6.05 92 - 7 - 92 - - -3 596 590 360 234 228 -7.69 0 - 99 - - - 0 0002 +2 158 167 991 831 822 7.38 99 - 99 - - - - -3 1319 1289 1152 165 135 -0.26 0 0 0 99 - - 0 +1 1156 1183 1323 165 138 -7.40 0 0 0 99 - - 0 -2 1729 1723 1592 135 129 -1.72 0 - - 99 - 0 0 -3 1778 1730 1554 222 174 0.94 0 - - 99 - - 0 -3 1976 1940 1779 195 159 0.49 0 - - 99 - - 0 +1 1819 1840 1980 159 138 -2.71 0 0 - 99 - - 0 -2 2050 2023 1895 153 126 -2.89 0 - 0 99 - 0 - 0003 +3 963 966 2072 1107 1104 8.16 99 - - 99 - - - 0004 -2 2233 2197 2051 180 144 -1.22 35 - - - 64 35 - +2 2333 2336 2467 132 129 -4.95 0 0 0 99 - - - +1 2299 2386 2514 213 126 -2.41 0 0 - 99 - - - -3 2864 2831 2580 282 249 0.03 0 - - 99 - - 0 +1 2794 2818 2946 150 126 -6.83 0 0 - 99 - - - 0005 +3 2073 2109 3107 1032 996 10.54 99 - - 99 - - - -2 3109 3091 2948 159 141 -3.67 0 - - 99 - 0 - -3 3311 3233 3102 207 129 -3.62 0 - 99 - - - 0 +1 3163 3205 3345 180 138 -1.32 0 0 99 - - - - -1 3591 3441 3319 270 120 -3.04 0 - 99 - 0 - - -2 3640 3631 3449 189 180 -2.19 0 - 99 - - 0 - +3 3555 3582 3746 189 162 -6.75 0 - 99 0 - - - -1 3786 3768 3607 177 159 -3.15 0 - 99 - 0 - - -1 3990 3939 3808 180 129 -8.51 0 - 99 - 0 - - 0006 +2 3056 3104 4276 1218 1170 7.89 99 - 99 - - - - 0007 -1 4320 4293 4159 159 132 -5.74 99 - - - 99 - - -3 4562 4544 4362 198 180 -2.03 0 - - 99 - - 0 -3 4742 4736 4572 168 162 2.34 0 - - 99 - - 0 +1 4588 4651 4773 183 120 0.16 0 0 - 99 - 0 - -2 4801 4726 4601 198 123 -2.14 0 0 - 99 - 0 0 -3 5183 5159 5013 168 144 -2.23 0 - - 99 - - 0 -2 5281 5260 5135 144 123 -7.46 0 - - 99 0 0 - 0008 +3 4287 4338 5294 1005 954 10.29 99 - - 99 - - - -1 5331 5247 5083 246 162 -8.75 0 - - 99 0 - - 0009 -1 5577 5577 5365 210 210 5.69 99 - - - 99 - - +3 5613 5625 5756 141 129 -5.24 0 - 99 0 - - - -1 5835 5775 5650 183 123 -1.15 1 - 98 - 1 - - -2 5926 5917 5762 162 153 2.58 2 - 97 - - 2 - -1 6123 6024 5842 279 180 -5.54 0 - 99 - 0 - - 0010 +2 5582 5603 6199 615 594 5.16 99 - 99 - - - - -1 6465 6438 6298 165 138 0.54 0 99 - - 0 - - +2 6611 6611 6814 201 201 -2.31 0 99 0 - - - - -1 7161 7149 6952 207 195 0.54 0 99 - - 0 - - 0011 +1 6097 6100 7221 1122 1119 8.10 99 99 - - - - - 0012 -2 7624 7588 7298 324 288 1.92 99 - - - - 99 - +1 8026 8038 8217 189 177 -1.46 0 0 - 99 - - 0 -3 8219 8141 7962 255 177 1.53 0 - - 99 - - 0 -2 8323 8200 8069 252 129 -1.73 0 0 - 99 - 0 0 -3 8477 8435 8298 177 135 9.14 1 - - 98 - - 1 -2 8533 8527 8405 126 120 -0.97 0 1 - 98 - 0 - +1 8389 8413 8634 243 219 0.03 0 0 - 99 - - - -3 8753 8708 8553 198 153 2.14 0 - - 99 - - 0 +1 8662 8662 8784 120 120 0.37 0 0 - 99 - - - -2 9100 9016 8882 216 132 -3.71 0 - - 99 - 0 - +1 9478 9601 9762 282 159 -2.81 0 0 - 99 - - - 0013 +3 7758 7800 9881 2121 2079 10.18 99 - - 99 - - - -2 9889 9754 9608 279 144 0.82 0 0 - 99 - 0 - 0014 -1 10170 10134 10006 162 126 0.31 99 - - - 99 - - 0015 -3 10394 10226 10041 351 183 -1.97 99 - - - - - 99 +2 10343 10403 10528 183 123 -3.77 0 99 0 - 0 - - -1 10722 10692 10324 396 366 0.96 0 99 - - 0 - - +3 10770 10773 10937 165 162 -2.11 0 99 - 0 - - 0 -3 11096 11075 10611 483 462 0.45 0 99 - - - - 0 -3 11264 11234 11097 165 135 -3.01 0 99 - - 0 - 0 -1 11313 11268 11086 225 180 1.97 0 99 - - 0 - - +2 11144 11156 11329 183 171 -0.20 0 99 0 - - - - -3 11543 11543 11388 153 153 -3.46 0 99 - - - - 0 -1 11742 11727 11593 147 132 -5.08 0 99 - - 0 0 - 0016 +1 10252 10288 12021 1767 1731 10.02 99 99 - - - - - -1 12021 11928 11806 213 120 2.87 0 99 - - 0 - - -1 12390 12177 12052 336 123 -3.41 0 99 - - 0 - 0 0017 -3 12860 12161 12030 828 129 0.89 99 - - - - - 99 -3 13178 13082 12912 264 168 -3.36 0 99 - - - - 0 -3 13364 13361 13233 129 126 -3.19 0 99 - - - - 0 -1 13710 13656 13498 210 156 1.29 0 99 - - 0 - - -3 13892 13814 13659 231 153 0.92 0 99 - - - - 0 -3 14090 14045 13893 195 150 -3.32 0 99 - - - - 0 -3 14255 14249 14091 162 156 -0.72 0 99 - - - - 0