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_fragilis.result/NZ_QSUS010000191.7255.AOI_01.fna /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_fragilis.result/GLIMMER.icm /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_fragilis.result/NZ_QSUS010000191.7255.AOI_01 Sequence file = /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_fragilis.result/NZ_QSUS010000191.7255.AOI_01.fna Number of sequences = 1 ICM model file = /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_fragilis.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_QSUS010000191.7255.AOI_01 Sequence length = 20060 ----- Start ----- --- Length ---- ----------- Scores ------------ ID Frame of Orf of Gene Stop of Orf of Gene Raw InFrm F1 F2 F3 R1 R2 R3 0001 -2 325 163 17 306 144 13.20 99 - - - - 99 - 0002 +3 222 222 410 186 186 5.70 99 - - 99 - - - +2 311 314 460 147 144 3.75 0 0 0 - 99 - - +2 497 620 787 288 165 6.97 0 - 0 - 99 - - +2 812 815 979 165 162 13.37 0 - 0 - 99 - - +2 1172 1184 1402 228 216 9.48 0 - 0 - 99 - - 0003 -1 1428 1422 241 1185 1179 18.14 99 - - - 99 - - +2 1583 1583 1750 165 165 5.33 0 - 0 - 99 - - +1 1729 1735 1875 144 138 7.14 0 0 - - 99 - - +2 1835 1841 2116 279 273 11.43 0 - 0 - 99 - - +3 2280 2283 2417 135 132 16.68 0 - 0 0 99 - - +2 2276 2276 2515 237 237 10.26 0 - 0 - 99 - - +2 2516 2519 2650 132 129 7.79 0 - 0 - 99 - - +3 3042 3102 3242 198 138 2.48 0 - - 0 99 - - +2 3341 3350 3493 150 141 10.55 0 - 0 - 99 - - +2 3548 3755 4045 495 288 6.64 0 - 0 - 99 - - 0004 -1 4374 4347 1579 2793 2766 17.63 99 - - - 99 - - 0005 +2 4487 4532 4660 171 126 4.61 99 - 99 - - - - 0006 -1 4734 4701 4549 183 150 6.62 99 - - - 99 - - 0007 +1 4612 4612 4848 234 234 2.08 99 99 - - - - - 0008 -1 4869 4860 4735 132 123 6.31 76 - - 23 76 - - +3 4728 4836 5042 312 204 2.60 0 - - 0 - 99 - 0009 -2 5245 5221 4739 504 480 13.70 99 - - - - 99 - 0010 -1 5973 5958 5794 177 162 5.93 74 - 25 - 74 - - 0011 +3 5874 5883 6044 168 159 10.61 99 - 0 99 - - - 0012 +2 5783 5786 6049 264 261 7.66 99 - 99 - - - - 0013 -3 6641 6608 6387 252 219 9.90 99 - - - - - 99 -2 6658 6652 6497 159 153 4.59 0 99 - - - 0 - 0014 +1 6445 6451 7089 642 636 14.26 99 99 - - - - - 0015 +2 7007 7016 7162 153 144 9.62 99 - 99 - - - - +2 7340 7373 7531 189 156 3.93 0 0 0 - - - 99 +1 7186 7204 7635 447 429 2.38 0 0 - - - - 99 -2 7762 7732 7571 189 159 1.94 0 - - - - 0 99 +1 7687 7705 7845 156 138 2.74 0 0 - - - - 99 +3 7818 7854 7979 159 123 3.27 0 - - 0 - - 99 +1 8467 8476 8670 201 192 8.75 0 0 - - - - 99 +2 8606 8615 8740 132 123 6.34 0 - 0 - 0 - 99 +1 8827 8836 8979 150 141 7.44 0 0 - - - - 99 -2 9106 9094 8945 159 147 0.14 2 - - - - 2 97 -1 9291 9231 9091 198 138 -0.47 0 - - - 0 - 99 0016 -3 9308 9308 7110 2196 2196 11.48 99 - - - - - 99 +1 9313 9475 9651 336 174 12.86 0 0 - - - - 99 0017 -3 9836 9824 9309 525 513 14.75 99 - - - - - 99 +1 9652 9682 9840 186 156 10.38 0 0 - - - - 99 0018 -1 10134 10110 9889 243 219 1.90 99 - - - 99 - - +3 10086 10101 10322 234 219 5.24 0 - - 0 - 99 - 0019 +3 10398 10413 10544 144 129 12.56 36 - - 36 - 63 - +1 10486 10510 10650 162 138 6.19 0 0 - - - 99 - 0020 -2 10774 10753 10091 681 660 15.20 99 - - - - 99 - +1 10822 10828 10953 129 123 6.15 0 0 - - - 99 - +3 11094 11187 11312 216 123 12.88 0 - - 0 0 99 - -1 11361 11340 11161 198 177 7.12 0 - - - 0 99 - -1 11571 11568 11431 138 135 5.16 0 - - - 0 99 - -1 11763 11757 11608 153 147 0.84 0 - - - 0 99 - +3 12012 12078 12212 198 132 11.66 0 - - 0 - 99 - +1 12127 12157 12303 174 144 -0.90 0 0 - - - 99 - -1 13035 13011 12838 195 171 7.89 0 - - - 0 99 - 0021 -2 13096 13093 10778 2316 2313 12.29 99 - - - - 99 - -3 13313 13307 13173 138 132 0.82 0 - - - 99 - 0 +3 13422 13422 13544 120 120 0.74 0 - - 0 99 - - 0022 -1 14010 13998 13090 918 906 12.90 99 - - - 99 - - 0023 +3 13899 13938 14108 207 168 6.76 99 - - 99 - - - 0024 -3 14327 14291 14139 186 150 10.76 99 - - - - - 99 -2 14464 14461 14306 156 153 5.48 0 99 - - - 0 - -2 14635 14599 14477 156 120 0.60 0 99 - - - 0 0 -1 14757 14739 14563 192 174 -0.70 0 99 - - 0 - 0 0025 +1 14278 14281 14835 555 552 12.83 99 99 - - - - - -3 15311 15278 14925 384 351 5.70 0 99 - - - - 0 -1 15762 15744 15601 159 141 2.70 0 99 - - 0 - - 0026 +1 14836 14842 15798 960 954 13.03 99 99 - - - - - 0027 -2 15859 15820 15683 174 135 8.97 99 - - - - 99 - -3 15983 15974 15831 150 141 11.37 0 99 - - - - 0 -3 16604 16604 16473 129 129 3.41 0 99 - - - - 0 -2 16813 16801 16643 168 156 1.80 0 99 - - - 0 - -3 16907 16880 16683 222 195 2.00 0 99 - - - - 0 +2 16796 16901 17038 240 135 9.49 0 99 0 - 0 - - -1 17064 17043 16834 228 207 3.82 0 99 - - 0 - - -1 17316 17274 17083 231 189 1.87 0 99 - - 0 - - -1 17631 17628 17500 129 126 -2.16 0 99 0 - 0 - - -2 17782 17716 17585 195 129 6.44 0 99 - - - 0 - -2 18043 18043 17909 132 132 -0.89 0 99 - - - 0 - 0028 +1 15799 15811 18231 2430 2418 12.10 99 99 - - - - - 0029 +3 18612 18621 18758 144 135 6.85 99 - - 99 - - - 0030 +2 18677 18707 18928 249 219 3.96 99 - 99 - - - - +2 19106 19136 19258 150 120 -6.57 0 0 0 - 99 - - +1 18883 18916 19362 477 444 -0.53 0 0 - - 99 - - 0031 -1 19602 19566 18760 840 804 8.40 99 - - - 99 - - 0032 +2 19409 19469 19699 288 228 3.85 99 - 99 - - - - 0033 -1 19860 19842 19654 204 186 -0.50 98 - - - 98 1 - 0034 -2 19873 19855 19595 276 258 -2.29 99 - - - - 99 -