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_gingivicanis.result/NZ_BAKX010000051.1.AOI_01.fna /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Porphyromonas_gingivicanis.result/GLIMMER.icm /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Porphyromonas_gingivicanis.result/NZ_BAKX010000051.1.AOI_01 Sequence file = /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Porphyromonas_gingivicanis.result/NZ_BAKX010000051.1.AOI_01.fna Number of sequences = 1 ICM model file = /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Porphyromonas_gingivicanis.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_BAKX010000051.1.AOI_01 Sequence length = 21140 ----- Start ----- --- Length ---- ----------- Scores ------------ ID Frame of Orf of Gene Stop of Orf of Gene Raw InFrm F1 F2 F3 R1 R2 R3 0001 -1 198 180 52 144 126 -7.01 89 - 10 - 89 - - 0002 -2 241 235 95 144 138 1.73 99 - - - - 99 - 0003 +1 148 169 324 174 153 0.17 24 24 - 75 - - - 0004 +3 120 144 347 225 201 0.82 99 - - 99 - - - 0005 -3 434 407 222 210 183 5.77 99 - - - - - 99 0006 +3 348 381 602 252 219 2.76 99 - - 99 - - - +1 496 505 672 174 165 -2.41 0 0 - - - - 99 0007 -3 767 617 435 330 180 2.26 99 - - - - - 99 0008 +2 812 851 982 168 129 -0.66 99 - 99 - - - - -2 1516 1513 1316 198 195 -6.39 0 99 - - - 0 - +2 1391 1448 1597 204 147 -0.71 0 99 0 - 0 - - -1 1662 1623 1420 240 201 3.02 0 99 - - 0 - - -3 2057 1877 1701 354 174 -7.58 0 99 - - - - 0 -1 2343 2289 2104 237 183 -2.38 0 99 - - 0 - - 0009 +1 1249 1264 2370 1119 1104 10.57 99 99 - - - - - -3 2381 2336 2187 192 147 -2.96 0 99 - - 0 - 0 0010 +3 2316 2376 2699 381 321 9.67 99 - - 99 - - - +1 2470 2563 2703 231 138 -2.69 0 0 - - - 1 98 -3 2735 2693 2556 177 135 3.68 0 0 - 99 - 0 0 0011 -2 2851 2746 2444 405 300 1.88 99 - - - - 99 - -3 2915 2912 2763 150 147 -0.80 0 - - 99 - - 0 -2 3127 3106 2930 195 174 -4.27 0 - - 99 - 0 - +1 3100 3112 3261 159 147 -5.24 0 0 - 99 - - - -2 3517 3508 3134 381 372 -0.01 0 - - 99 - 0 - +2 3335 3377 3550 213 171 -0.13 0 - 0 99 - - - 0012 +3 2700 2718 3638 936 918 8.43 99 - - 99 - - - 0013 +2 3599 3650 3802 201 150 8.19 99 - 99 - - 0 - -2 3805 3799 3635 168 162 1.59 0 - 99 - - 0 - +3 3786 3924 4136 348 210 -2.57 0 99 - 0 - - - -3 4268 4232 4077 189 153 -6.68 0 99 - - - - 0 0014 +1 3700 3775 4383 681 606 9.02 99 99 - - - - - +2 4496 4652 4846 348 192 2.54 0 - 0 - - 99 - -1 4959 4950 4741 216 207 -0.35 0 - - - 0 99 - +2 4847 4889 5170 321 279 -0.61 0 0 0 - - 99 - 0015 -2 5266 5215 4385 879 828 10.21 99 - - - - 99 - -1 5280 5262 5044 234 216 1.95 0 0 - - 0 99 - +2 5327 5357 5509 180 150 -3.18 0 - 0 - - 99 - +3 5673 5682 5810 135 126 -3.39 0 - - 0 - 99 - 0016 -2 5941 5938 5333 606 603 10.70 99 - - - - 99 - 0017 +3 5967 6048 6200 231 150 1.72 99 - - 99 - - - 0018 -3 6296 6260 6135 159 123 2.49 99 - - - - - 99 +2 6587 6599 6724 135 123 -3.11 0 99 0 - - - - 0019 +1 6301 6331 6888 585 555 5.47 99 99 - - - - - -1 6906 6855 6721 183 132 -5.31 0 99 - - 0 - - -3 7313 7238 7062 249 174 0.55 0 - - 99 - - 0 -2 7588 7549 7400 186 147 8.40 0 - - 99 - 0 - -3 7739 7724 7518 219 204 0.07 0 0 - 99 - - 0 +1 7438 7447 7743 303 294 0.11 0 0 - 99 - - - -1 7836 7830 7690 144 138 -1.66 0 - - 99 0 - - +1 7792 7816 7977 183 159 -0.08 0 0 - 99 - - - -1 8091 8010 7837 252 171 1.32 0 - - 99 0 - - -1 8520 8478 8338 180 138 -8.41 0 - - 99 0 - - -3 8588 8483 8346 240 135 -1.14 0 - - 99 0 - 0 +1 8536 8536 8787 249 249 -3.12 0 0 - 99 - - - -2 8788 8728 8606 180 120 -1.83 0 0 - 99 - 0 0 0020 +3 6822 6822 8966 2142 2142 10.44 99 - - 99 - - - -2 9406 9397 9242 162 153 1.14 0 - 99 0 - 0 - +3 9240 9246 9434 192 186 1.00 0 - 99 0 - - - +1 9349 9352 9474 123 120 -4.96 0 0 99 - - - - -2 9859 9802 9458 399 342 1.49 0 - 99 - - 0 - 0021 +2 8993 8993 9982 987 987 11.76 99 - 99 - - - - 0022 -2 10084 10060 9860 222 198 -5.84 99 - - - - 99 - -3 10184 10178 10038 144 138 -0.33 0 99 - - - - 0 -1 10479 10458 10327 150 129 -3.21 0 99 - - 0 - 0 +3 10377 10392 10562 183 168 -2.23 0 99 - 0 - - 0 -3 10667 10418 10269 396 147 -4.42 0 99 - - - - 0 -2 11083 11074 10856 225 216 -0.74 0 99 - - - 0 - 0023 +1 9970 9979 11157 1185 1176 10.13 99 99 - - - - - 0024 +3 11088 11091 11294 204 201 -0.95 99 - - 99 - - - -2 11836 11806 11564 270 240 -3.28 0 - - - 99 0 - +2 11645 11648 11878 231 228 -0.49 0 - 0 - 99 - - -2 12265 12217 12020 243 195 -8.44 0 - - - 99 0 - +1 12211 12256 12402 189 144 5.36 0 0 - - 99 - - +2 12284 12344 12511 225 165 -6.88 0 - 0 - 99 - - +1 12403 12502 12633 228 129 -1.05 0 0 - - 99 - - +2 12662 12770 12907 243 135 -2.18 0 - 0 - 99 - - +1 12784 12817 13134 348 315 0.87 0 0 - - 99 - - +1 13384 13486 13716 330 228 1.75 0 0 - - 99 - - -3 13724 13652 13527 195 123 -9.29 0 0 - - 99 - 0 +1 13879 13897 14025 144 126 0.12 0 0 - - 99 - - +2 14054 14075 14236 180 159 0.15 0 - 0 - 99 - - +1 14407 14527 14652 243 123 2.45 0 0 - - 99 - - 0025 +3 14787 14805 14939 150 132 2.85 31 - 0 31 68 - - 0026 -1 14997 14886 11467 3528 3417 9.68 99 - - - 99 - - +3 15228 15234 15362 132 126 -2.76 2 - - 2 97 - - 0027 -1 15411 15315 15055 354 258 7.66 99 - - - 99 - - -2 15565 15562 15437 126 123 -3.33 0 - - 0 - 0 99 0028 +3 15363 15369 15587 222 216 0.69 99 - - 99 - - - 0029 -3 15677 15650 15387 288 261 5.38 99 - - - - - 99 +1 15535 15553 15681 144 126 -4.21 0 0 - - - - 99 0030 -1 15903 15867 15667 234 198 4.52 99 - - - 99 - - 0031 -2 16096 15949 15812 282 135 -0.12 99 - - - - 99 - +3 15954 15963 16118 162 153 -8.77 0 - 99 0 0 - - -1 16119 16080 15934 183 144 -6.11 0 - 99 - 0 0 - -1 16329 16272 16120 207 150 -1.86 0 - 99 - 0 - - -1 16653 16623 16501 150 120 -0.46 0 - 99 - 0 - - -2 16798 16750 16532 264 216 -1.40 0 - 99 - - 0 - -2 16960 16933 16799 159 132 -6.84 0 - 99 - 0 0 - 0032 +2 15908 15950 16987 1077 1035 8.83 99 - 99 - - - - -1 16995 16872 16726 267 144 -5.98 0 - 99 - 0 - - 0033 -1 17259 17145 16996 261 147 4.95 99 - - - 99 - - -2 17404 17368 17129 273 237 4.08 0 - 99 - - 0 - -2 17866 17860 17735 129 123 -5.86 0 - 99 - - 0 - 0034 +2 17099 17132 17917 816 783 4.16 99 - 99 - - - - +3 17817 17835 17969 150 132 -9.14 0 99 - 0 - - - -1 18066 18012 17860 204 150 -2.40 0 99 - - 0 - - 0035 +1 17770 17845 18525 753 678 5.19 99 99 - - - - - -2 18853 18814 18686 165 126 -3.33 0 - - - 99 0 - +1 18694 18775 18924 228 147 5.08 0 0 - - 99 - - -2 19039 19027 18875 162 150 1.93 0 - - - 99 0 - 0036 +2 18902 18929 19051 147 120 6.40 43 0 43 - 56 - - +1 18925 18952 19086 159 132 -0.15 0 0 - - 99 - - +3 19068 19083 19217 147 132 -0.40 0 - - 0 99 0 - -2 19318 19189 19040 276 147 2.67 0 - - - 99 0 - 0037 -1 19443 19437 18559 882 876 10.19 99 - - - 99 - - 0038 +1 19228 19231 19488 258 255 2.79 99 99 - - - - - 0039 +2 19256 19601 19726 468 123 2.13 99 - 99 - - - - 0040 -3 19907 19889 19620 285 267 1.47 99 - - - - - 99 -2 20092 19954 19766 324 186 1.57 0 - - 99 - 0 - 0041 +3 19743 19749 20345 600 594 8.32 99 - - 99 - - - -3 20393 20204 20025 366 177 -6.69 0 - - 99 - - 0 -2 20518 20500 20378 138 120 3.48 0 99 - - - 0 - +2 20654 20669 20791 135 120 -0.91 0 99 0 - 0 - - -1 20880 20841 20608 270 231 2.02 0 99 - - 0 - - -3 20981 20972 20841 138 129 -3.01 0 99 - - - - 0 -2 21076 21040 20909 165 129 -3.57 0 99 - - - 0 - -3 21140 21131 21003 135 126 -1.73 0 99 - - 0 - 0