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_JGCT010000761.991.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_JGCT010000761.991.AOI_01 Sequence file = /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_fragilis.result/NZ_JGCT010000761.991.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_JGCT010000761.991.AOI_01 Sequence length = 10557 ----- Start ----- --- Length ---- ----------- Scores ------------ ID Frame of Orf of Gene Stop of Orf of Gene Raw InFrm F1 F2 F3 R1 R2 R3 -1 507 486 316 189 168 2.25 0 99 - - 0 - - 0001 +1 1 25 561 558 534 4.97 99 99 - - - - - 0002 +2 434 437 604 168 165 -1.16 99 - 99 - - - - +3 891 984 1109 216 123 -2.10 0 - - 0 - 99 0 +1 1024 1048 1173 147 123 -9.41 0 0 - - - 99 0 0003 -2 1195 1105 638 555 465 5.60 99 - - - - 99 - -3 1406 1151 900 504 249 -5.66 0 - - - - 99 0 +1 1174 1387 1509 333 120 -2.96 0 0 - - 99 - - -2 1738 1732 1496 240 234 -7.28 0 - - - 99 0 - -3 1991 1976 1809 180 165 -4.65 0 0 - - 99 - 0 +3 1929 1929 2057 126 126 -8.73 0 0 - 0 99 - - +1 1747 1762 2148 399 384 1.48 0 0 - - 99 - - 0004 -1 2190 2166 1273 915 891 8.63 99 - - - 99 - - +2 2309 2318 2551 240 231 1.71 0 - 0 - - 99 - 0005 -2 2641 2629 2180 459 447 7.67 99 - - - - 99 - 0006 +3 2469 2616 2792 321 174 1.84 99 - - 99 - - - -2 3061 2956 2774 285 180 -4.29 0 - - - - 0 99 +1 2869 3145 3273 402 126 -9.92 0 0 - 0 - 99 0 0007 -3 3308 3185 2658 648 525 9.39 99 - - - - - 99 +3 3126 3273 3410 282 135 -5.89 0 - - 0 - 99 - +3 3411 3423 3545 132 120 -7.41 0 0 - 0 - 99 - 0008 -2 3601 3601 3080 519 519 4.84 99 - - - - 99 - 0009 -3 3773 3752 3546 225 204 -3.18 99 - - - - - 99 +1 3703 3796 3948 243 150 -9.35 0 0 4 - - 95 - +3 3945 3966 4097 150 129 -4.95 0 - 5 0 - 94 - +1 3985 4078 4293 306 213 -6.00 0 0 0 - 0 99 - -1 4293 4209 4075 216 132 -4.46 0 0 0 - 0 99 - +2 3713 3842 4399 684 555 1.02 0 - 0 - - 99 - -3 4568 4379 4245 321 132 -9.18 0 - 0 - - 99 0 0010 -2 4747 4741 3755 990 984 4.49 99 - - - - 99 - 0011 +2 4556 4559 4813 255 252 -1.43 99 - 99 - - - - 0012 +3 4668 4794 4928 258 132 -2.38 74 - - 74 - - 25 +1 4849 4855 5022 171 165 0.03 5 5 - - - - 94 0013 -3 5030 4883 4752 276 129 -2.76 26 - - 73 - - 26 0014 -2 5155 5074 4925 228 147 -3.91 99 - - - - 99 - -3 5198 5168 5031 165 135 -10.93 0 - - - 99 - 0 +1 5125 5182 5352 225 168 0.27 0 0 - - 99 - - +2 5240 5297 5458 216 159 -7.01 0 - 0 - 99 - - +1 5539 5575 5730 189 153 -0.60 0 0 - - 99 0 0 -3 5732 5720 5565 165 153 -4.25 0 0 - - 99 0 0 -2 5761 5710 5468 291 240 -9.38 0 - - - 99 0 - 0015 -1 5793 5781 4957 834 822 8.00 99 - - - 99 - - 0016 +2 5672 5699 5824 150 123 -4.16 99 - 99 - - - - +3 5856 5928 6125 267 195 0.39 0 - - 0 - - 99 +2 6092 6098 6283 189 183 -7.25 0 - 0 - - - 99 +3 6222 6240 6497 273 255 1.18 0 - - 0 - - 99 -2 6505 6472 6347 156 123 -4.80 0 - - 0 - 0 99 +1 6436 6448 6582 144 132 -11.06 0 0 - - - - 99 +3 6693 6999 7178 483 177 1.39 0 - - 0 - - 99 -2 7306 7291 7154 150 135 -2.49 0 - - - - 0 99 -2 7513 7486 7307 204 177 -10.46 0 - - - - 0 99 +1 7375 7405 7530 153 123 -2.36 0 0 - - - - 99 +3 7518 7536 7820 300 282 0.48 0 - - 0 - - 99 0017 -3 7850 7790 5790 2058 1998 9.74 99 - - - - - 99 0018 +1 7693 7723 7857 162 132 -3.74 99 99 - - - - - +3 8019 8070 8222 201 150 -4.09 0 - 0 0 - 99 - 0019 -2 8512 8497 7955 555 540 11.61 99 - - - - 99 - +3 8547 8577 8726 177 147 1.62 0 - - 0 - 99 - -1 9099 9066 8923 174 141 -10.01 0 - 0 - 0 99 0 +2 8660 8930 9109 447 177 -1.96 0 - 0 - - 99 - +1 9088 9106 9258 168 150 -11.36 0 0 0 - - 99 - 0020 -2 9289 9277 8516 771 759 10.00 99 - - - - 99 - 0021 +2 9110 9200 9322 210 120 -3.16 99 - 99 - - - - 0022 +3 9300 9300 9440 138 138 -0.06 99 - - 99 - - - 0023 -2 9565 9547 9374 189 171 4.47 83 - 16 - - 83 - +2 9566 9581 9772 204 189 -9.95 0 0 0 - - - 99 +2 9797 9845 9991 192 144 -7.84 0 0 0 0 - - 99 +1 9508 9949 10200 690 249 -0.14 0 0 - 0 - - 99 -2 10252 10237 10103 147 132 -7.90 0 - - 0 - 0 99 +3 9849 10107 10397 546 288 0.35 0 - - 0 - - 99 0024 -3 10556 10532 9558 996 972 6.39 99 - - - - - 99