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_SPGY010000171.7994.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_SPGY010000171.7994.AOI_01 Sequence file = /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_fragilis.result/NZ_SPGY010000171.7994.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_SPGY010000171.7994.AOI_01 Sequence length = 19341 ----- Start ----- --- Length ---- ----------- Scores ------------ ID Frame of Orf of Gene Stop of Orf of Gene Raw InFrm F1 F2 F3 R1 R2 R3 +3 306 321 455 147 132 -9.14 0 - 99 0 - 0 - -2 709 319 161 546 156 -3.31 0 0 99 - - 0 - -3 761 713 567 192 144 -4.47 0 - 99 - 0 0 0 -3 992 977 786 204 189 -8.53 0 - 99 - 0 - 0 0001 +2 2 26 1000 996 972 5.70 99 - 99 - - - - -1 1050 609 358 690 249 -0.43 0 - 99 - 0 0 - 0002 +3 993 1011 1184 189 171 2.83 14 - - 14 - - 85 0003 -2 1258 1258 1118 138 138 -2.44 99 - - - - 99 - 0004 -3 1448 1358 1236 210 120 -2.84 99 - - - - - 99 -1 1470 1452 1300 168 150 -5.81 0 - - 99 0 - 0 +1 1459 1486 1635 174 147 -12.90 0 0 - 99 - - 0 -3 1898 1628 1449 447 177 -3.60 0 - - 99 - - 0 -2 2011 1981 1832 177 147 0.42 0 - - 99 - 0 - 0005 +3 1269 1281 2042 771 759 9.19 99 - - 99 - - - -2 2539 2488 2336 201 150 -5.06 0 - - 99 - 0 0 0006 +3 2046 2061 2603 555 540 10.66 99 - - 99 - - - 0007 -1 2865 2835 2701 162 132 -1.88 99 - - - 99 - - -2 3040 2980 2738 300 240 -2.76 0 - 99 - - 0 - -1 3183 3153 3028 153 123 -2.91 0 - 99 - 0 - - +3 3045 3072 3251 204 177 -4.75 0 - 99 0 - - - -2 3865 3559 3380 483 177 0.33 0 - 99 - - 0 - +3 3903 3924 4052 147 126 -8.94 0 - 99 0 - 0 - -2 4060 4024 3866 192 156 -1.28 0 - 99 - - 0 - -1 4122 4110 3976 144 132 -10.62 0 - 99 - 0 - - +3 4053 4086 4211 156 123 -2.85 0 - 99 0 - 0 - -2 4336 4318 4061 273 255 0.52 0 - 99 - - 0 - -3 4466 4460 4275 189 183 -0.82 0 - 99 - - - 0 -2 4702 4630 4433 267 195 -1.04 0 - 99 - - 0 - 0008 +2 2708 2768 4768 2058 1998 8.84 99 - 99 - - - - 0009 -3 4886 4871 4734 150 135 -3.67 99 - - - - - 99 +2 4826 4838 4993 165 153 -2.28 0 99 0 0 0 - - -1 5019 4983 4828 189 153 -2.80 0 99 0 0 0 - - +3 4797 4848 5090 291 240 -8.36 0 99 - 0 - - - -3 5318 5276 5100 216 174 -3.03 0 99 - - - - 0 -1 5433 5355 5206 225 147 -0.79 0 99 - - 0 - - +2 5360 5399 5527 165 126 -8.05 0 99 0 0 - - - 0010 +1 4765 4777 5601 834 822 6.81 99 99 - - - - - 0011 +3 5403 5484 5633 228 147 -5.57 99 - - 99 - - - -1 5760 5703 5536 222 165 -1.27 4 - 95 - 4 - - 0012 -2 5890 5875 5630 258 243 -0.56 99 - - - - 99 - 0013 -3 6002 5999 5745 255 252 0.10 99 - - - - - 99 +2 5990 6179 6313 321 132 -5.72 0 - 0 99 - - 0 +1 6265 6349 6483 216 132 -5.85 0 0 - 99 0 - 0 -1 6573 6480 6265 306 213 -5.20 0 0 - 99 0 - 0 -2 6613 6592 6461 150 129 -8.42 0 - - 99 - 0 0 -1 6765 6762 6610 153 150 -8.37 0 - - 91 0 - 8 0014 +3 5811 5817 6803 990 984 3.20 99 - - 99 - - - -3 6845 6386 6159 684 225 -4.72 0 - - 99 - - 0 0015 +2 6785 6806 7012 225 204 -0.77 99 - 99 - - - - -2 7147 7135 7013 132 120 -6.70 0 - - 99 0 0 - -2 7432 7285 7148 282 135 -8.21 0 - - 99 - 0 - 0016 +3 6957 7242 7478 519 234 6.40 99 - - 99 - - - -1 7689 7500 7285 402 213 -2.30 6 - 93 - 6 - - +3 7497 7602 7784 285 180 -4.44 0 - 99 0 - - - 0017 +2 7250 7475 7900 648 423 2.70 99 - 99 - - - - 0018 -2 8089 7942 7766 321 174 2.37 99 - - - - 99 - -3 8249 8240 8007 240 231 0.42 0 - - 99 - - 0 0019 +3 7917 7929 8378 459 447 10.43 99 - - 99 - - - +2 8567 8582 8749 180 165 -4.07 0 99 0 - 0 - - -1 8811 8796 8410 399 384 -0.64 0 99 - - 0 - - +3 8820 8826 9062 240 234 -9.09 0 99 - 0 - - - 0020 +1 8368 8392 9285 915 891 7.52 99 99 - - - - - 0021 +2 9152 9182 9304 150 120 -3.87 20 - 20 0 79 - - -1 9384 9171 9049 333 120 -4.35 0 99 - 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- 2 97 0 0 -3 14009 13784 13647 360 135 -6.44 0 0 - - 99 - 0 0029 -1 14556 14475 13138 1416 1335 8.82 99 - - - 99 - - 0030 +1 14422 14443 14619 195 174 3.59 99 99 - - - - - 0031 +1 14758 14794 15009 249 213 3.93 99 99 - - - - - +3 15120 15135 15257 135 120 5.08 0 - - 0 - 99 - +1 15301 15334 15459 156 123 -0.29 0 0 0 - - 99 - +2 15152 15389 15541 387 150 -2.18 0 - 0 - - 99 - +3 15414 15447 15581 165 132 1.79 1 - - 1 - 98 - 0032 -2 15592 15532 15113 477 417 13.31 99 - - - - 99 - +1 15529 15550 15705 174 153 -5.40 0 0 - - 99 - - 0033 -1 15741 15696 15493 246 201 -0.56 99 - - - 99 - - +2 15569 15578 15745 174 165 1.17 4 - 4 - 95 - - +2 16226 16244 16372 144 126 8.73 8 - 8 - 91 - - 0034 -1 16392 16350 15817 573 531 12.20 99 - - - 99 - - +2 16397 16397 16576 177 177 3.87 0 - 0 - - 99 - +2 16580 16586 16735 153 147 0.71 0 - 0 - - 99 - +2 16823 16898 17029 204 129 -4.85 0 - 0 - - 99 - -1 17250 17250 17077 171 171 2.05 0 - 0 - 0 99 - +2 17075 17099 17254 177 153 1.11 0 - 0 - 0 99 - +2 17390 17417 17548 156 129 4.27 0 - 0 - - 99 - +2 17603 17603 17764 159 159 4.91 0 - 0 - - 99 - 0035 -2 17824 17815 16358 1464 1455 12.09 99 - - - - 99 - 0036 -1 18273 18231 18109 162 120 4.50 99 - - - 99 - - 0037 +3 18129 18150 18308 177 156 5.36 99 - - 99 - - - 0038 +1 18178 18214 18357 177 141 8.83 99 99 - - - - - 0039 -1 18618 18561 18418 198 141 -0.36 99 - - - 99 - - 0040 +3 18612 18645 18773 159 126 4.82 99 - - 99 - - - 0041 +3 18810 18810 19082 270 270 -0.96 99 - - 99 - - - 0042 -3 19256 19256 18834 420 420 11.33 99 - - - - - 99 0043 -1 19341 19332 19207 132 123 -1.52 99 - - - 99 - -