Origin IGS: aaaattattcttttaaatttgtttgtataataaatggtgttgttggaagaaatttctattaacaccgtttttttattgttaaaaaactattttacttgtaaaaatgataatcctctgttacaataatacatattattcatcaaaatataatattaaaatactaaattttatgtatagaaaaaaatttaatatcatgtcaattatgttccttattttttaaggctaagagggaatttggtgagataccaaaacgagcccgtcgctgtaattgagttttttcttgttttataccactggatttttatttgggaaggtaaagaaatataaatcataagtcagaagacctgcataattgaattactctatctcgtggaaaagataaagagtaaaactcttagtgtgtaatagctatgcttttttacgatgcatggcttttttattttaaatcagtacaaggaggaatattttatgaaaaaatctataaaaaaatttatattatttctgttt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aaacagaaataatataaatttttttatagattttttcataaaatattcctccttgtactgatttaaaataaaaaagccatgcatcgtaaaaaagcatagctattacacactaagagttttactctttatcttttccacgagatagagtaattcaattatgcaggtcttctgacttatgatttatatttctttaccttcccaaataaaaatccagtggtataaaacaagaaaaaactcaattacagcgacgggctcgttttggtatctcaccaaattccctcttagccttaaaaaataaggaacataattgacatgatattaaatttttttctatacataaaatttagtattttaatattatattttgatgaataatatgtattattgtaacagaggattatcatttttacaagtaaaatagttttttaacaataaaaaaacggtgttaatagaaatttcttccaacaacaccatttattatacaaacaaatttaaaagaataatttt Mask Tandem Repeat Region ================================================ aaaattattcttttaaatttgtttgtataataaatggtgttgttggaagaaatttctattaacaccgtttttttattgttaaaaaactattttacttgtaaaaatgataatcctctgttacaataatacatattattcatcaaaatataatattaaaatactaaattttatgtatagaaaaaaatttaatatcatgtcaattatgttccttattttttaaggctaagagggaatttggtgagataccaaaacgagcccgtcgctgtaattgagttttttcttgttttataccactggatttttatttgggaaggtaaagaaatataaatcataagtcagaagacctgcataattgaattactctatctcgtggaaaagataaagagtaaaactcttagtgtgtaatagctatgcttttttacgatgcatggcttttttattttaaatcagtacaaggaggaatattttatgaaaaaatctataaaaaaatttatattatttctgttt Find is-nt database================================================ Query_seq: FN0299:FN0300|FN0299:FN0300:Aspartyl-tRNA synthetase:Iron(III) dicitrate-binding protein:->->:934312..934818 507 aaaattattcttttaaatttgtttgtataataaatggtgttgttggaagaaatttctattaacaccgtttttttattgttaaaaaactattttacttgtaaaaatgataatcctctgttacaataatacatattattcatcaaaatataatattaaaatactaaattttatgtatagaaaaaaatttaatatcatgtcaattatgttccttattttttaaggctaagagggaatttggtgagataccaaaacgagcccgtcgctgtaattgagttttttcttgttttataccactggatttttatttgggaaggtaaagaaatataaatcataagtcagaagacctgcataattgaattactctatctcgtggaaaagataaagagtaaaactcttagtgtgtaatagctatgcttttttacgatgcatggcttttttattttaaatcagtacaaggaggaatattttatgaaaaaatctataaaaaaatttatattatttctgttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN0299:FN0300|FN0299:FN0300:Aspartyl-tRNA synthetase:Iron(III) dicitrate-binding protein:->->:934312..934818 507 aaaattattcttttaaatttgtttgtataataaatggtgttgttggaagaaatttctattaacaccgtttttttattgttaaaaaactattttacttgtaaaaatgataatcctctgttacaataatacatattattcatcaaaatataatattaaaatactaaattttatgtatagaaaaaaatttaatatcatgtcaattatgttccttattttttaaggctaagagggaatttggtgagataccaaaacgagcccgtcgctgtaattgagttttttcttgttttataccactggatttttatttgggaaggtaaagaaatataaatcataagtcagaagacctgcataattgaattactctatctcgtggaaaagataaagagtaaaactcttagtgtgtaatagctatgcttttttacgatgcatggcttttttattttaaatcagtacaaggaggaatattttatgaaaaaatctataaaaaaatttatattatttctgttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN0299:FN0300|FN0299:FN0300:Aspartyl-tRNA synthetase:Iron(III) dicitrate-binding protein:->->:934312..934818 507 aaaattattcttttaaatttgtttgtataataaatggtgttgttggaagaaatttctattaacaccgtttttttattgttaaaaaactattttacttgtaaaaatgataatcctctgttacaataatacatattattcatcaaaatataatattaaaatactaaattttatgtatagaaaaaaatttaatatcatgtcaattatgttccttattttttaaggctaagagggaatttggtgagataccaaaacgagcccgtcgctgtaattgagttttttcttgttttataccactggatttttatttgggaaggtaaagaaatataaatcataagtcagaagacctgcataattgaattactctatctcgtggaaaagataaagagtaaaactcttagtgtgtaatagctatgcttttttacgatgcatggcttttttattttaaatcagtacaaggaggaatattttatgaaaaaatctataaaaaaatttatattatttctgttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aaaattattcttttaaatttgtttgtataataaatggtgttgttggaagaaatttctattaacaccgtttttttattgttaaaaaactattttacttgtaaaaatgataatcctctgttacaataatacatattattcatcaaaatataatattaaaatactaaattttatgtatagaaaaaaatttaatatcatgtcaattatgttccttattttttaaggctaagagggaatttggtgagataccaaaacgagcccgtcgctgtaattgagttttttcttgttttataccactggatttttatttgggaaggtaaagaaatataaatcataagtcagaagacctgcataattgaattactctatctcgtggaaaagataaagagtaaaactcttagtgtgtaatagctatgcttttttacgatgcatggcttttttattttaaatcagtacaaggaggaatattttatgaaaaaatctataaaaaaatttatattatttctgttt Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: + Start: 34 End: 123 ................................. M V L L E E I S I N T V F L L L K N Y F T C K N D N P L L Q ................................................................................................................................................................................................................................................................................................................................................................................................ Protein_Len: 43 Strand: + Start: 89 End: 217 ........................................................................................ M L L V K M I I L C Y N N T Y Y S S K Y N I K I L N F M Y R K K F N I M S I M F L I F .................................................................................................................................................................................................................................................................................................. Protein_Len: 35 Strand: + Start: 165 End: 269 .................................................................................................................................................................... M L C I E K N L I S C Q L C S L F F K A K R E F G E I P K R A R R C N .............................................................................................................................................................................................................................................. Protein_Len: 30 Strand: + Start: 235 End: 324 .......................................................................................................................................................................................................................................... M V R Y Q N E P V A V I E F F L V L Y H W I F I W E G K E I ....................................................................................................................................................................................... Protein_Len: 34 Strand: + Start: 405 End: 506 .................................................................................................................................................................................................................................................................................................................................................................................................................... M A M L F Y D A W L F Y F K S V Q G G I F Y E K I Y K K I Y I I S V . Protein_Len: 40 Strand: - Start: 213 End: 332 .................................................................................................................................................................................................................... K K L S L P F K T L Y W F S G T A T I S N K R T K Y W Q I K I Q S P L S I Y I M ............................................................................................................................................................................... Protein_Len: 30 Strand: - Start: 200 End: 289 ....................................................................................................................................................................................................... N H E K N K L A L L S N P S I G F R A R R Q L Q T K E Q K M .......................................................................................................................................................................................................................... aaaattattcttttaaatttgtttgtataataaatggtgttgttggaagaaatttctattaacaccgtttttttattgttaaaaaactattttacttgtaaaaatgataatcctctgttacaataatacatattattcatcaaaatataatattaaaatactaaattttatgtatagaaaaaaatttaatatcatgtcaattatgttccttattttttaaggctaagagggaatttggtgagataccaaaacgagcccgtcgctgtaattgagttttttcttgttttataccactggatttttatttgggaaggtaaagaaatataaatcataagtcagaagacctgcataattgaattactctatctcgtggaaaagataaagagtaaaactcttagtgtgtaatagctatgcttttttacgatgcatggcttttttattttaaatcagtacaaggaggaatattttatgaaaaaatctataaaaaaatttatattatttctgttt Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ PromScan Matrix: RpoD-17 Strand: + Score: 85 Start: 95 End: 124 ..............................................................................................CTTGTAAAAATGATAATCCTCTGTTACAAT............................................................................................................................................................................................................................................................................................................................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ aaaattattcttttaaatttgtttgtataataaatggtgttgttggaagaaatttctattaacaccgtttttttattgttaaaaaactattttacttgtaaaaatgataatcctctgttacaataatacatattattcatcaaaatataatattaaaatactaaattttatgtatagaaaaaaatttaatatcatgtcaattatgttccttattttttaaggctaagagggaatttggtgagataccaaaacgagcccgtcgctgtaattgagttttttcttgttttataccactggatttttatttgggaaggtaaagaaatataaatcataagtcagaagacctgcataattgaattactctatctcgtggaaaagataaagagtaaaactcttagtgtgtaatagctatgcttttttacgatgcatggcttttttattttaaatcagtacaaggaggaatattttatgaaaaaatctataaaaaaatttatattatttctgttt Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 90 HP_score: -4.9 Tail_Score: -5.95946 Start: 35 End: 67 Full_Region: TGTTTGTATAATAAA TGGTGTTGTTGGAAG AAA TTTCTATTAACACCG TTTTTTTATTGTTAA ..................................TGGTGTTGTTGGAAGAAATTTCTATTAACACCG........................................................................................................................................................................................................................................................................................................................................................................................................................................................ TransTerm Strand: + Conf: 70 HP_score: -6.2 Tail_Score: -4.15127 Start: 36 End: 66 Full_Region: GTTTGTATAATAAAT GGTGTTGTTGGAAG AAA TTTCTATTAACACC GTTTTTTTATTGTTA ...................................GGTGTTGTTGGAAGAAATTTCTATTAACACC......................................................................................................................................................................................................................................................................................................................................................................................................................................................... TransTerm Strand: + Conf: 40 HP_score: -2.4 Tail_Score: -2.87211 Start: 154 End: 170 Full_Region: ATCAAAATATAATAT TAAAAT ACTAA ATTTTA TGTATAGAAAAAAAT .........................................................................................................................................................TAAAATACTAAATTTTA................................................................................................................................................................................................................................................................................................................................................. TransTerm Strand: - Conf: 39 HP_score: -2.4 Tail_Score: -2.73706 Start: 154 End: 170 Full_Region: atttttttctataca taaaat ttagt atttta atattatattttgat .........................................................................................................................................................taaaatttagtatttta................................................................................................................................................................................................................................................................................................................................................. TransTerm Strand: + Conf: 74 HP_score: -2.8 Tail_Score: -5.80951 Start: 408 End: 432 Full_Region: TCTTAGTGTGTAATA GCTATGCTTT TTTAC GATGCATGGC TTTTTTATTTTAAAT .......................................................................................................................................................................................................................................................................................................................................................................................................................GCTATGCTTTTTTACGATGCATGGC........................................................................... Find igs database================================================ Query_seq: FN0299:FN0300|FN0299:FN0300:Aspartyl-tRNA synthetase:Iron(III) dicitrate-binding protein:->->:934312..934818 507 aaaattattcttttaaatttgtttgtataataaatggtgttgttggaagaaatttctattaacaccgtttttttattgttaaaaaactattttacttgtaaaaatgataatcctctgttacaataatacatattattcatcaaaatataatattaaaatactaaattttatgtatagaaaaaaatttaatatcatgtcaattatgttccttattttttaaggctaagagggaatttggtgagataccaaaacgagcccgtcgctgtaattgagttttttcttgttttataccactggatttttatttgggaaggtaaagaaatataaatcataagtcagaagacctgcataattgaattactctatctcgtggaaaagataaagagtaaaactcttagtgtgtaatagctatgcttttttacgatgcatggcttttttattttaaatcagtacaaggaggaatattttatgaaaaaatctataaaaaaatttatattatttctgttt Intra-Species Hit: Count: 1 Min: 1 Max: 507 Len: 507 Subject: NC_003454_FN0299_FN0300|Aspartyl-tRNA synthetase:Iron(III) dicitrate-binding protein|POSITIVE:POSITIVE|[934312,934818]|507 HSP 1 e-value: 0.0 bit: 880.0 Len: 507 Query Start:1 Query End:507 Subject Strand: POSITIVE Subject Start: 1 Subject End: 507 aaaattattcttttaaatttgtttgtataataaatggtgttgttggaagaaatttctattaacaccgnnnnnnnattgttaaaaaactattttacttgtaaaaatgataatcctctgttacaataatacatattattcatcaaaatataatattaaaatactaaattttatgtatagnnnnnnntttaatatcatgtcaattatgttccttattttttaaggctaagagggaatttggtgagataccaaaacgagcccgtcgctgtaattgagttttttcttgttttataccactggatttttatttgggaaggtaaagaaatataaatcataagtcagaagacctgcataattgaattactctatctcgtggaaaagataaagagtaaaactcttagtgtgtaatagctatgcttttttacgatgcatggcttttttattttaaatcagtacaaggaggaatattttatgaaaaaatctatnnnnnnntttatattatttctgttt aaaattattcttttaaatttgtttgtataataaatggtgttgttggaagaaatttctattaacaccgtttttttattgttaaaaaactattttacttgtaaaaatgataatcctctgttacaataatacatattattcatcaaaatataatattaaaatactaaattttatgtatagaaaaaaatttaatatcatgtcaattatgttccttattttttaaggctaagagggaatttggtgagataccaaaacgagcccgtcgctgtaattgagttttttcttgttttataccactggatttttatttgggaaggtaaagaaatataaatcataagtcagaagacctgcataattgaattactctatctcgtggaaaagataaagagtaaaactcttagtgtgtaatagctatgcttttttacgatgcatggcttttttattttaaatcagtacaaggaggaatattttatgaaaaaatctataaaaaaatttatattatttctgttt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAAUUAUUCUUUUAAAUUUGUUUGUAUAAUAAAUGGUGUUGUUGGAAGAAAUUUCUAUUAACACCGUUUUUUUAUUGUUAAAAAACUAUUUUACUUGUAAAAAUGAUAAUCCUCUGUUACAAUAAUACAUAUUAUUCAUCAAAAUAUAAUAUUAAAAUACUAAAUUUUAUGUAUAGAAAAAAAUUUAAUAUCAUGUCAAUUAUGUUCCUUAUUUUUUAAGGCUAAGAGGGAAUUUGGUGAGAUACCAAAACGAGCCCGUCGCUGUAAUUGAGUUUUUUCUUGUUUUAUACCACUGGAUUUUUAUUUGGGAAGGUAAAGAAAUAUAAAUCAUAAGUCAGAAGACCUGCAUAAUUGAAUUACUCUAUCUCGUGGAAAAGAUAAAGAGUAAAACUCUUAGUGUGUAAUAGCUAUGCUUUUUUACGAUGCAUGGCUUUUUUAUUUUAAAUCAGUACAAGGAGGAAUAUUUUAUGAAAAAAUCUAUAAAAAAAUUUAUAUUAUUUCUGUUU .............((((...((((..((((((((((((((((..((((....))))...)))))))))....)))))))....))))...)))).......((((((((.((((((..(((.....(((((((((.........((((.((((((((((((..........)))).........)))))))).))))(((((((((.(((((.....)))))......(((..(((((((...))))))).....)))(((.(((....(((....((((((......((((.(..(((....)))..)...))))))))))......))).....)))..)))..)))))))))..(((((((((((........))))..)))))))......)))))))))..((((((((...........))))))))................)))...))))))...(((((((........))))))).......))))))))...... (-98.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAACAGAAAUAAUAUAAAUUUUUUUAUAGAUUUUUUCAUAAAAUAUUCCUCCUUGUACUGAUUUAAAAUAAAAAAGCCAUGCAUCGUAAAAAAGCAUAGCUAUUACACACUAAGAGUUUUACUCUUUAUCUUUUCCACGAGAUAGAGUAAUUCAAUUAUGCAGGUCUUCUGACUUAUGAUUUAUAUUUCUUUACCUUCCCAAAUAAAAAUCCAGUGGUAUAAAACAAGAAAAAACUCAAUUACAGCGACGGGCUCGUUUUGGUAUCUCACCAAAUUCCCUCUUAGCCUUAAAAAAUAAGGAACAUAAUUGACAUGAUAUUAAAUUUUUUUCUAUACAUAAAAUUUAGUAUUUUAAUAUUAUAUUUUGAUGAAUAAUAUGUAUUAUUGUAACAGAGGAUUAUCAUUUUUACAAGUAAAAUAGUUUUUUAACAAUAAAAAAACGGUGUUAAUAGAAAUUUCUUCCAACAACACCAUUUAUUAUACAAACAAAUUUAAAAGAAUAAUUUU .....((((...((((((....)))))).....))))......(((((.....((((.((.(((........)))..))))))..(((((((.((((((..(((((.....(((((.....)))))((((((......))))))..)))))....)))))).(((((((((......(((((.(((((............))))).)))))((((((((((.....((((((((.(((((((....((.(((.....((((((.....))))))..)))))....(((((.....)))))....))))))).............))))))))...((((((((.((((((....)))))).))))).))).......))))))))))...)))))))))....)))))))..(((.((((.(((((((....)))))))..((((((....(((.....)))....))))))...)))).)))..............)))))..... (-83.54) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 356 310 262 64 6 NC_003454:FN2011|5end_Valyl-tRNA_synthetase_513096..513326_NEGATIVE 300 70 22 200 153 NC_003454:FN0275|5end_Transposase_901560..901790_NEGATIVE 286 70 22 203 156 NC_003454:FN0599|5end_Transposase_1253833..1254063_POSITIVE 265 240 196 137 87 NC_003454:FN0770|5end_Hemin_transport_system_ATP-binding_protein_hmuV_1426672..1426902_POSITIVE 257 299 251 79 30 NC_003454:FN1253|5end_hypothetical_protein_1910405..1910635_NEGATIVE 248 393 353 74 31 NC_003454:FN0035|5end_hypothetical_protein_676902..677132_NEGATIVE 248 434 397 56 15 NC_003454:FN0007|5end_glucose-inhibited_division_protein_A_645938..646168_POSITIVE 247 295 257 231 194 NC_003454:FN1515|5end_Phophatidylinositol-4-phosphate_5-kinase_18905..19135_POSITIVE 244 294 257 177 143 NC_003454:FN0438|5end_Branched_chain_amino_acid_transport_system_II_carrier_protein_1080822..1081052_NEGATIVE 243 268 221 72 21 NC_003454:FN2072|5end_Guanine-hypoxanthine_permease_582506..582736_POSITIVE 240 311 274 151 100 NC_003454:FN0204|5end_Glutaconyl-CoA_decarboxylase_A_subunit_829572..829802_POSITIVE 240 298 251 104 57 NC_003454:FN0042|5end_Rod_shape-determining_protein_rodA_682129..682359_NEGATIVE 236 419 372 65 15 NC_003454:FN0379|5end_hypothetical_protein_1010511..1010741_POSITIVE 228 248 210 224 190 NC_003454:FN0860|5end_hypothetical_protein_1521563..1521793_NEGATIVE 228 59 13 52 4 NC_003454:FN1743|5end_Multidrug-efflux_transporter_2_regulator_241838..242068_NEGATIVE 222 298 257 64 15 NC_003454:FN2015|5end_ATP-dependent_protease_ATP-binding_subunit_518255..518485_NEGATIVE 218 220 173 218 164 NC_003454:FN0546|5end_Lipopolysaccharide_core_biosynthesis_protein_rfaQ_1198639..1198869_POSITIVE 218 288 246 228 189 NC_003454:FN0525|5end_Penicillin-binding_protein_1181840..1182070_NEGATIVE 217 231 191 122 83 NC_003454:FN1451|5end_cell_division_protein_FtsZ_2132710..2132940_NEGATIVE 214 439 394 59 13 NC_003454:FN1863|5end_L-beta-lysine_5,6-aminomutase_alpha_subunit_354678..354908_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 589 70 23 71 24 NC_003454:FN0123|3end_ATPase_755027..755177_POSITIVE 361 73 31 44 2 NC_003454:FN0119|3end_Flavodoxin_752647..752797_POSITIVE 355 68 23 44 1 NC_003454:FN0254|3end_Fusobacterium_outer_membrane_protein_family_881390..881540_POSITIVE 314 72 36 86 47 NC_003454:FN0904|3end_NAD(FAD)-utilizing_dehydrogenase_1563760..1563910_POSITIVE 308 70 22 78 29 NC_003454:FN0120|3end_hypothetical_protein_752718..752868_NEGATIVE 293 80 32 100 47 NC_003454:FN0905|3end_hypothetical_protein_1563781..1563931_NEGATIVE 283 66 26 79 44 NC_003454:FN0926|3end_GTP_pyrophosphokinase_1581671..1581821_POSITIVE 271 73 35 83 50 NC_003454:FN0927|3end_hypothetical_protein_1581693..1581843_NEGATIVE 265 240 196 137 87 NC_003454:FN0769|3end_Hemin_transport_system_permease_protein_hmuU_1426752..1426902_POSITIVE 252 245 202 77 37 NC_003454:FN1550|3end_hypothetical_protein_64887..65037_NEGATIVE 241 250 201 108 57 NC_003454:FN1749|3end_Pyruvate-flavodoxin_oxidoreductase_247705..247855_POSITIVE 240 311 274 130 79 NC_003454:FN0203|3end_Glutaconate_CoA-transferase_subunit_B_829631..829781_POSITIVE 231 70 27 59 12 NC_003454:FN0299|3end_Aspartyl-tRNA_synthetase_934251..934401_POSITIVE 228 248 210 49 15 NC_003454:FN0861|3end_hypothetical_protein_1521738..1521888_NEGATIVE 222 298 257 52 3 NC_003454:FN2016|3end_ATP-dependent_Clp_protease_proteolytic_subunit_518267..518417_NEGATIVE 217 231 191 99 60 NC_003454:FN1452|3end_Cell_division_protein_ftsA_2132733..2132883_NEGATIVE 217 110 67 125 79 NC_003454:FN0257|3end_Transporter_884107..884257_POSITIVE 214 439 394 59 13 NC_003454:FN1864|3end_DNA_mismatch_repair_protein_mutS_354678..354828_NEGATIVE 211 79 32 81 36 NC_003454:FN0811|3end_hypothetical_protein_1471108..1471258_POSITIVE 209 457 412 52 8 NC_003454:FN1267|3end_hypothetical_protein_1923054..1923204_NEGATIVE