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_JACFSU0100000011.8485.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_JACFSU0100000011.8485.AOI_01 Sequence file = /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_fragilis.result/NZ_JACFSU0100000011.8485.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_JACFSU0100000011.8485.AOI_01 Sequence length = 21128 ----- Start ----- --- Length ---- ----------- Scores ------------ ID Frame of Orf of Gene Stop of Orf of Gene Raw InFrm F1 F2 F3 R1 R2 R3 -3 257 164 30 225 132 -7.14 0 99 - - - - 0 +2 149 236 370 219 132 -2.71 0 99 0 - 0 - - -1 603 219 67 534 150 0.74 0 99 - - 0 - 0 -3 680 521 327 351 192 -3.50 0 99 - - 0 - 0 0001 +1 1 37 960 957 921 12.20 99 99 - - - - - -3 1460 1448 1287 171 159 -1.45 0 99 - - 0 - 0 -2 1549 1525 1403 144 120 -2.25 0 99 - - 0 0 - +2 1415 1511 1633 216 120 -4.11 0 99 0 - 0 - - -3 2234 2222 2061 171 159 -1.40 0 99 - - 0 - 0 0002 -1 2346 1290 1003 1341 285 2.71 99 - - - 99 - - -3 2432 2393 2235 195 156 -2.48 0 99 - - - - 0 0003 +1 1171 1183 2583 1410 1398 8.14 99 99 - - - - - -1 2592 2469 2347 243 120 -2.66 0 99 - - 0 - - -3 2615 2558 2433 180 123 -0.27 0 99 - - 0 - 0 0004 +2 2450 2501 2632 180 129 -1.43 99 - 99 - - - - 0005 +2 2633 2642 2977 342 333 9.67 99 - 99 - - 0 - -1 3204 3201 3016 186 183 -2.96 0 - 99 - 0 - - +3 3075 3078 3221 144 141 -8.25 0 - 99 0 - 0 - -2 3421 3382 3218 201 162 -1.46 0 - 99 - - 0 - +3 3324 3357 3503 177 144 -2.65 0 - 99 0 - - - 0006 +2 3005 3023 3787 780 762 7.81 99 - 99 - - - - +3 3672 3672 3824 150 150 -5.65 0 - - 0 - 99 - -2 3832 3781 3449 381 330 0.95 0 - 99 - - 0 - +1 3769 3871 4020 249 147 -6.74 0 0 - - 99 - - +3 4281 4281 4487 204 204 -10.83 0 - 0 0 99 - - 0007 -1 4512 4509 3817 693 690 9.32 99 - - - 99 - - +2 4166 4259 4516 348 255 0.10 0 - 0 - 99 - - 0008 -2 4555 4549 4412 141 135 -3.62 99 - - - - 99 - 0009 -3 4799 4736 4506 291 228 -2.28 99 - - - - - 99 -2 4909 4768 4580 327 186 -6.73 0 - - - 99 0 0 +1 4804 4825 5037 231 210 4.08 0 0 - - 99 - - +2 4862 4898 5044 180 144 0.20 0 - 0 - 99 - - +2 5153 5174 5326 171 150 -1.43 0 0 0 - 99 - - +1 5038 5164 5424 384 258 0.56 0 0 - - 99 - - 0010 -1 5610 5565 4552 1056 1011 9.72 99 - - - 99 - - 0011 +3 5559 5574 5786 225 210 -2.75 99 - - 99 - - - 0012 +2 5732 5780 5926 192 144 -3.07 64 - 64 - - 35 - 0013 -2 6031 5839 5660 369 177 -3.43 99 - - - - 99 - 0014 +3 5892 5910 6068 174 156 -3.18 99 - - 99 - - - +1 6100 6295 6573 471 276 4.86 0 0 - - 99 - - 0015 -1 6579 6567 6001 576 564 13.03 99 - - - 99 - - 0016 +3 6591 6609 6731 138 120 -3.64 99 - - 99 - - - 0017 +2 6746 6761 6922 174 159 2.57 99 - 99 - - 0 - 0018 -1 7059 7035 6775 282 258 0.21 99 - - - 99 - - -2 7330 7255 7118 210 135 3.28 0 - - 99 - 0 0 0019 +3 7122 7134 7775 651 639 8.74 99 - - 99 - - 0 0020 +1 7675 7675 7824 147 147 -0.36 98 98 - - - - 1 0021 -3 7925 7334 6984 939 348 -1.31 99 - - - - - 99 -1 8037 8016 7882 153 132 -0.50 0 - 99 - 0 0 - 0022 -2 8317 8197 7772 543 423 -0.03 99 - - - - 99 - -1 8424 8418 8257 165 159 -10.55 0 - 99 0 0 - - +3 8163 8277 8447 282 168 -11.13 0 - 99 0 - - - +3 8448 8454 8618 168 162 -6.47 0 - 99 0 - 0 - -1 8850 8823 8683 165 138 -4.31 0 - 82 - 0 17 - +1 8695 8728 8859 162 129 -5.10 0 0 99 - - 0 - -2 8869 8749 8318 549 429 2.39 0 - 99 - - 0 - 0023 +2 7796 7805 8878 1080 1071 5.97 99 - 99 - - - - 0024 -1 9183 9123 8851 330 270 0.39 99 - - - 99 - - +2 9170 9257 9382 210 123 -4.99 0 99 0 - - - - -1 9645 9411 9283 360 126 -1.32 0 99 - - 0 - - 0025 +1 8863 8875 9849 984 972 10.85 99 99 - - - - - 0026 -1 9870 9867 9646 222 219 -0.47 99 - - - 99 - - -3 10190 10133 9960 228 171 2.14 0 - - 99 - - 0 -1 10242 10131 9988 252 141 -8.41 0 - - 99 0 - 0 +1 10450 10459 10632 180 171 -10.76 0 0 - 99 - - 0 -3 10853 10802 10419 432 381 -2.66 0 - - 99 - - 0 0027 +3 9939 9990 11138 1197 1146 10.64 99 - - 99 - - - -3 11285 10985 10854 429 129 3.28 0 - - 99 - - 0 -2 11341 11278 11150 189 126 2.01 0 - 99 - - 0 0 -1 11373 11349 11218 153 129 -5.90 0 - 99 - 0 - - -2 11635 11635 11426 207 207 1.96 0 - 99 - - 0 - 0028 +2 11081 11171 11830 747 657 5.69 99 - 99 - - - - -2 12079 11992 11831 246 159 3.48 0 - - 99 - 0 - -3 12101 12014 11850 249 162 -2.40 0 - - 99 - 0 0 0029 +3 11817 11835 12230 411 393 9.66 99 - - 99 - - - +1 11953 12115 12258 303 141 -4.63 7 7 - - - 18 73 0030 -2 12280 12262 12080 198 180 -2.47 99 - - - - 99 - 0031 -3 12377 12251 12102 273 147 -3.29 56 8 - - - 34 56 0032 +3 12255 12255 12479 222 222 -0.35 99 - - 99 - - - +3 12699 12702 12848 147 144 -1.67 0 - 0 0 - 99 - 0033 +2 12338 12410 13171 831 759 -0.78 0 - 0 - - 99 - +3 13074 13302 13433 357 129 -3.96 3 - 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0 - 99 - - +1 16345 16357 16701 354 342 -2.11 0 0 - - 99 - - +2 16517 16616 16741 222 123 -3.25 0 - 0 0 99 - - 0038 -1 16875 16863 15616 1257 1245 4.36 99 - - - 99 - - +2 16997 17012 17146 147 132 -2.58 0 0 0 - 99 - - +2 17147 17231 17356 207 123 -3.07 0 0 0 - 99 - - 0039 +1 16810 16816 17403 591 585 0.79 99 99 - - - - - +2 17435 17456 17617 180 159 -1.03 0 - 0 - 99 - - +1 17485 17617 17865 378 246 1.09 0 0 - - 99 - - 0040 -1 18117 17982 16876 1239 1104 5.66 99 - - - 99 - - 0041 +1 17866 17971 18123 255 150 -0.11 99 99 - 0 - - - -1 18294 18258 18130 162 126 -11.45 0 - - 0 0 - 99 0042 -3 18329 18308 18072 255 234 8.76 99 - - 0 - - 99 0043 +2 18317 18326 18475 156 147 2.28 99 - 99 - - - - -2 18691 18637 18485 204 150 -8.38 0 - - - 99 0 - +2 18629 18827 19012 381 183 -2.51 0 - 0 - 99 0 - -2 19021 18994 18806 213 186 -7.93 0 - 0 - 99 0 - 0044 -1 19248 19227 18385 861 840 8.73 99 - - - 99 - - 0045 +2 19121 19157 19312 189 153 -8.24 99 - 99 - - - - +1 19327 19378 19671 342 291 2.19 0 0 - - 99 - - 0046 -1 19896 19839 19330 564 507 13.45 99 - - - 99 - - +3 20214 20268 20390 174 120 -10.32 0 0 - 0 99 0 - 0047 -1 20424 20412 19897 525 513 13.33 99 - - - 99 - - 0048 -2 20623 20521 20249 372 270 -9.37 99 - - - - 99 - 0049 +1 20422 20428 20646 222 216 2.15 99 99 - - - - - +2 20441 20501 20653 210 150 -1.00 0 - 0 - 99 - - +3 20601 20829 20957 354 126 -8.22 0 - - 0 99 - - 0050 -1 21126 21051 20437 687 612 11.93 99 - - - 99 - -