Origin IGS: ttagaactctccatttaatatgttattgcaatatttttaaatatgtatataattaaaaataaaaaaatattacaaagaaattttaacataatttctgtatatattcaataataaaaaataaattttttctttataaaagttactgatattacatttttatattttaaaataaatattgaaattaaagtaaaatttaaatgtatattcataataatattttactttttcgtaaaatctataaaaaaaaattttataataatataaatctttaaaaaatgataaaaatttaaatgtatatctataataatataaattttttttttattttcttttacatcaaataaaaaaaatttctttaatcaaaattttataaataaatcaatacttatttttaatgtatattcataataataaaaatagaaaaaattatcatctttttctttaaataaattctaaatttcaaaagccttttatttttttttaatttcattacatataacataatttacaaaaaacataactagcactttaaaatttaattattaattttataaataaatacttgacaaaatatcaaataacttgtaaaattctaaactgaatatagtagatttttggaggtgaatatattttatgaaaagaacatttcaaccaaatcaaagaaaaagaaaaaaagatcatggttttagagctagaatgtcaactaaaaatggaagaaaagttttaaaaagaagaagagttagaggaagagctaaattatcagcataaagcccagtgaaaaacactgggtttttacctagagttgtttttggagacatg .........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.........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 catgtctccaaaaacaactctaggtaaaaacccagtgtttttcactgggctttatgctgataatttagctcttcctctaactcttcttctttttaaaacttttcttccatttttagttgacattctagctctaaaaccatgatctttttttctttttctttgatttggttgaaatgttcttttcataaaatatattcacctccaaaaatctactatattcagtttagaattttacaagttatttgatattttgtcaagtatttatttataaaattaataattaaattttaaagtgctagttatgttttttgtaaattatgttatatgtaatgaaattaaaaaaaaataaaaggcttttgaaatttagaatttatttaaagaaaaagatgataattttttctatttttattattatgaatatacattaaaaataagtattgatttatttataaaattttgattaaagaaattttttttatttgatgtaaaagaaaataaaaaaaaaatttatattattatagatatacatttaaatttttatcattttttaaagatttatattattataaaatttttttttatagattttacgaaaaagtaaaatattattatgaatatacatttaaattttactttaatttcaatatttattttaaaatataaaaatgtaatatcagtaacttttataaagaaaaaatttattttttattattgaatatatacagaaattatgttaaaatttctttgtaatatttttttatttttaattatatacatatttaaaaatattgcaataacatattaaatggagagttctaa Mask Tandem Repeat Region ================================================ ttagaactctccatttaatatgttattgcaatatttttaaatatgtatataattaaaaataaaaaaatattacaaagaaattttaacataatttctgtatatattcaataataaaaaataaattttttctttataaaagttactgatattacatttttatattttaaaataaatattgaaattaaagtaaaatttaaatgtatattcataataatattttactttttcgtaaaatctataaaaaaaaattttataataatataaatctttaaaaaatgataaaaatttaaatgtatatctataataatataaattttttttttattttcttttacatcaaataaaaaaaatttctttaatcaaaattttataaataaatcaatacttatttttaatgtatattcataataataaaaatagaaaaaattatcatctttttctttaaataaattctaaatttcaaaagccttttatttttttttaatttcattacatataacataatttacaaaaaacataactagcactttaaaatttaattattaattttataaataaatacttgacaaaatatcaaataacttgtaaaattctaaactgaatatagtagatttttggaggtgaatatattttatgaaaagaacatttcaaccaaatcaaagaaaaagaaaaaaagatcatggttttagagctagaatgtcaactaaaaatggaagaaaagttttaaaaagaagaagagttagaggaagagctaaattatcagcataaagcccagtgaaaaacactgggtttttacctagagttgtttttggagacatg Find is-nt database================================================ Query_seq: FN0001:FN0002|FN0001:FN0002:Chromosomal replication initiator protein dnaA:Ribonuclease P protein component:<-->:641869..642687 819 ttagaactctccatttaatatgttattgcaatatttttaaatatgtatataattaaaaataaaaaaatattacaaagaaattttaacataatttctgtatatattcaataataaaaaataaattttttctttataaaagttactgatattacatttttatattttaaaataaatattgaaattaaagtaaaatttaaatgtatattcataataatattttactttttcgtaaaatctataaaaaaaaattttataataatataaatctttaaaaaatgataaaaatttaaatgtatatctataataatataaattttttttttattttcttttacatcaaataaaaaaaatttctttaatcaaaattttataaataaatcaatacttatttttaatgtatattcataataataaaaatagaaaaaattatcatctttttctttaaataaattctaaatttcaaaagccttttatttttttttaatttcattacatataacataatttacaaaaaacataactagcactttaaaatttaattattaattttataaataaatacttgacaaaatatcaaataacttgtaaaattctaaactgaatatagtagatttttggaggtgaatatattttatgaaaagaacatttcaaccaaatcaaagaaaaagaaaaaaagatcatggttttagagctagaatgtcaactaaaaatggaagaaaagttttaaaaagaagaagagttagaggaagagctaaattatcagcataaagcccagtgaaaaacactgggtttttacctagagttgtttttggagacatg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN0001:FN0002|FN0001:FN0002:Chromosomal replication initiator protein dnaA:Ribonuclease P protein component:<-->:641869..642687 819 ttagaactctccatttaatatgttattgcaatatttttaaatatgtatataattaaaaataaaaaaatattacaaagaaattttaacataatttctgtatatattcaataataaaaaataaattttttctttataaaagttactgatattacatttttatattttaaaataaatattgaaattaaagtaaaatttaaatgtatattcataataatattttactttttcgtaaaatctataaaaaaaaattttataataatataaatctttaaaaaatgataaaaatttaaatgtatatctataataatataaattttttttttattttcttttacatcaaataaaaaaaatttctttaatcaaaattttataaataaatcaatacttatttttaatgtatattcataataataaaaatagaaaaaattatcatctttttctttaaataaattctaaatttcaaaagccttttatttttttttaatttcattacatataacataatttacaaaaaacataactagcactttaaaatttaattattaattttataaataaatacttgacaaaatatcaaataacttgtaaaattctaaactgaatatagtagatttttggaggtgaatatattttatgaaaagaacatttcaaccaaatcaaagaaaaagaaaaaaagatcatggttttagagctagaatgtcaactaaaaatggaagaaaagttttaaaaagaagaagagttagaggaagagctaaattatcagcataaagcccagtgaaaaacactgggtttttacctagagttgtttttggagacatg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN0001:FN0002|FN0001:FN0002:Chromosomal replication initiator protein dnaA:Ribonuclease P protein component:<-->:641869..642687 819 ttagaactctccatttaatatgttattgcaatatttttaaatatgtatataattaaaaataaaaaaatattacaaagaaattttaacataatttctgtatatattcaataataaaaaataaattttttctttataaaagttactgatattacatttttatattttaaaataaatattgaaattaaagtaaaatttaaatgtatattcataataatattttactttttcgtaaaatctataaaaaaaaattttataataatataaatctttaaaaaatgataaaaatttaaatgtatatctataataatataaattttttttttattttcttttacatcaaataaaaaaaatttctttaatcaaaattttataaataaatcaatacttatttttaatgtatattcataataataaaaatagaaaaaattatcatctttttctttaaataaattctaaatttcaaaagccttttatttttttttaatttcattacatataacataatttacaaaaaacataactagcactttaaaatttaattattaattttataaataaatacttgacaaaatatcaaataacttgtaaaattctaaactgaatatagtagatttttggaggtgaatatattttatgaaaagaacatttcaaccaaatcaaagaaaaagaaaaaaagatcatggttttagagctagaatgtcaactaaaaatggaagaaaagttttaaaaagaagaagagttagaggaagagctaaattatcagcataaagcccagtgaaaaacactgggtttttacctagagttgtttttggagacatg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 1 Min: 634 Max: 765 Len: 132 Subject: UniRef90_P68997 Cluster: 50S ribosomal protein L34; n=1; Fusobacterium nucleatum subsp. nucleatum|Rep: 50S ribosomal protein L34 - Fusobacterium nucleatum subsp. nucleatum HSP 1 e-value: 4.0E-8 bit: 61.2 Len: 132 Query Start:634 Query End:765 Subject Strand: null Subject Start: 1 Subject End: 44 ......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................... M K R T F Q P N Q R K R K K D H G F R A R M S T K N X X X X X X X X X X X X X A K L S A ...................................................... ......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................... M K R T F Q P N Q R K R K K D H G F R A R M S T K N G R K V L K R R R V R G R A K L S A ...................................................... ttagaactctccatttaatatgttattgcaatatttttaaatatgtatataattaaaaataaaaaaatattacaaagaaattttaacataatttctgtatatattcaataataaaaaataaattttttctttataaaagttactgatattacatttttatattttaaaataaatattgaaattaaagtaaaatttaaatgtatattcataataatattttactttttcgtaaaatctataaaaaaaaattttataataatataaatctttaaaaaatgataaaaatttaaatgtatatctataataatataaattttttttttattttcttttacatcaaataaaaaaaatttctttaatcaaaattttataaataaatcaatacttatttttaatgtatattcataataataaaaatagaaaaaattatcatctttttctttaaataaattctaaatttcaaaagccttttatttttttttaatttcattacatataacataatttacaaaaaacataactagcactttaaaatttaattattaattttataaataaatacttgacaaaatatcaaataacttgtaaaattctaaactgaatatagtagatttttggaggtgaatatattttnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntaaagcccagtgaaaaacactgggtttttacctagagttgtttttggagacatg Predict ORF larger than 30AA ================================================ Protein_Len: 48 Strand: + Start: 118 End: 261 ..................................................................................................................... M N F F F I K V T D I T F L Y F K I N I E I K V K F K C I F I I I F Y F F V K S I K K N F I I I .............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................. Protein_Len: 31 Strand: + Start: 313 End: 405 ........................................................................................................................................................................................................................................................................................................................ M F F L F S F T S N K K N F F N Q N F I N K S I L I F N V Y S .............................................................................................................................................................................................................................................................................................................................................................................................................................. Protein_Len: 47 Strand: + Start: 625 End: 765 ................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ M Y F M K R T F Q P N Q R K R K K D H G F R A R M S T K N G R K V L K R R R V R G R A K L S A ...................................................... Protein_Len: 46 Strand: - Start: 681 End: 818 ........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ P K L A L I D V L F P L F T K F L L L T L P L A L N D A Y L G T F F V P N K G L T T K P S M . Protein_Len: 35 Strand: - Start: 577 End: 681 ................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ I V Q L I R F Q I Y Y I K P P S Y I K H F S C K L W I L S F S F F I M .......................................................................................................................................... Protein_Len: 37 Strand: - Start: 395 End: 505 .......................................................................................................................................................................................................................................................................................................................................................................................................... H I N M I I F I S F I I M K K K L Y I R F K L L R K N K K L K M V Y L M M .......................................................................................................................................................................................................................................................................................................................... Protein_Len: 31 Strand: - Start: 222 End: 314 ............................................................................................................................................................................................................................. K K T F D I F F F K I I I Y I K L F H Y F N L H I D I I I Y M ......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................... Protein_Len: 30 Strand: - Start: 160 End: 249 ............................................................................................................................................................... I K F Y I N F N F Y F K F T Y E Y Y Y K V K E Y F R Y F F M .......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................... Protein_Len: 36 Strand: - Start: 108 End: 215 ........................................................................................................... Y Y F I F K K K I F T V S I V N K Y K L I F I S I L T F N L H I N M I M ............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ ttagaactctccatttaatatgttattgcaatatttttaaatatgtatataattaaaaataaaaaaatattacaaagaaattttaacataatttctgtatatattcaataataaaaaataaattttttctttataaaagttactgatattacatttttatattttaaaataaatattgaaattaaagtaaaatttaaatgtatattcataataatattttactttttcgtaaaatctataaaaaaaaattttataataatataaatctttaaaaaatgataaaaatttaaatgtatatctataataatataaattttttttttattttcttttacatcaaataaaaaaaatttctttaatcaaaattttataaataaatcaatacttatttttaatgtatattcataataataaaaatagaaaaaattatcatctttttctttaaataaattctaaatttcaaaagccttttatttttttttaatttcattacatataacataatttacaaaaaacataactagcactttaaaatttaattattaattttataaataaatacttgacaaaatatcaaataacttgtaaaattctaaactgaatatagtagatttttggaggtgaatatattttnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntaaagcccagtgaaaaacactgggtttttacctagagttgtttttggagacatg 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: 92 Start: 562 End: 591 .................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTTGACAAAATATCAAATAACTTGTAAAAT.................................................................................................................................................................................................................................... PromScan Matrix: RpoD-17 Strand: - Score: 86 Start: 80 End: 109 ...............................................................................ATTGAATATATACAGAAATTATGTTAAAAT...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................... PromScan Matrix: RpoD-17 Strand: - Score: 82 Start: 405 End: 434 ....................................................................................................................................................................................................................................................................................................................................................................................................................GATGATAATTTTTTCTATTTTTATTATTAT................................................................................................................................................................................................................................................................................................................................................................................................. Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ ttagaactctccatttaatatgttattgcaatatttttaaatatgtatataattaaaaataaaaaaatattacaaagaaattttaacataatttctgtatatattcaataataaaaaataaattttttctttataaaagttactgatattacatttttatattttaaaataaatattgaaattaaagtaaaatttaaatgtatattcataataatattttactttttcgtaaaatctataaaaaaaaattttataataatataaatctttaaaaaatgataaaaatttaaatgtatatctataataatataaattttttttttattttcttttacatcaaataaaaaaaatttctttaatcaaaattttataaataaatcaatacttatttttaatgtatattcataataataaaaatagaaaaaattatcatctttttctttaaataaattctaaatttcaaaagccttttatttttttttaatttcattacatataacataatttacaaaaaacataactagcactttaaaatttaattattaattttataaataaatacttgacaaaatatcaaataacttgtaaaattctaaactgaatatagtagatttttggaggtgaatatattttnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntaaagcccagtgaaaaacactgggtttttacctagagttgtttttggagacatg Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 37 HP_score: -2.0 Tail_Score: -3.04517 Start: 236 End: 256 Full_Region: taaagatttatatta ttataaaa ttttt ttttatag attttacgaaaaagt ...........................................................................................................................................................................................................................................ttataaaatttttttttatag................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................... TransTerm Strand: + Conf: 100 HP_score: -10.3 Tail_Score: -4.67011 Start: 771 End: 789 Full_Region: ATTATCAGCATAAAG CCCAGTG AAAAA CACTGGG TTTTTACCTAGAGTT ..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CCCAGTGAAAAACACTGGG.............................. Find igs database================================================ Query_seq: FN0001:FN0002|FN0001:FN0002:Chromosomal replication initiator protein dnaA:Ribonuclease P protein component:<-->:641869..642687 819 ttagaactctccatttaatatgttattgcaatatttttaaatatgtatataattaaaaataaaaaaatattacaaagaaattttaacataatttctgtatatattcaataataaaaaataaattttttctttataaaagttactgatattacatttttatattttaaaataaatattgaaattaaagtaaaatttaaatgtatattcataataatattttactttttcgtaaaatctataaaaaaaaattttataataatataaatctttaaaaaatgataaaaatttaaatgtatatctataataatataaattttttttttattttcttttacatcaaataaaaaaaatttctttaatcaaaattttataaataaatcaatacttatttttaatgtatattcataataataaaaatagaaaaaattatcatctttttctttaaataaattctaaatttcaaaagccttttatttttttttaatttcattacatataacataatttacaaaaaacataactagcactttaaaatttaattattaattttataaataaatacttgacaaaatatcaaataacttgtaaaattctaaactgaatatagtagatttttggaggtgaatatattttnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntaaagcccagtgaaaaacactgggtttttacctagagttgtttttggagacatg Intra-Species Hit: Count: 1 Min: 1 Max: 819 Len: 819 Subject: NC_003454_FN0001_FN0002|Chromosomal replication initiator protein dnaA:Ribonuclease P protein component|NEGATIVE:POSITIVE|[641869,642687]|819 HSP 1 e-value: 6.0E-22 bit: 107.0 Len: 54 Query Start:1 Query End:54 Subject Strand: POSITIVE Subject Start: 1 Subject End: 54 ttagaactctccatttaatatgttattgcaatatttttaaatatgtatataatt............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................. ttagaactctccatttaatatgttattgcaatatttttaaatatgtatataatt............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................. HSP 2 e-value: 6.0E-22 bit: 107.0 Len: 54 Query Start:766 Query End:819 Subject Strand: POSITIVE Subject Start: 766 Subject End: 819 .............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................taaagcccagtgaaaaacactgggtttttacctagagttgtttttggagacatg .............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................taaagcccagtgaaaaacactgggtttttacctagagttgtttttggagacatg HSP 3 e-value: 1.0E-16 bit: 89.7 Len: 45 Query Start:483 Query End:527 Subject Strand: POSITIVE Subject Start: 483 Subject End: 527 ..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................aatttcattacatataacataatttacaaaaaacataactagcac.................................................................................................................................................................................................................................................................................................... ..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................aatttcattacatataacataatttacaaaaaacataactagcac.................................................................................................................................................................................................................................................................................................... HSP 4 e-value: 4.0E-14 bit: 81.8 Len: 41 Query Start:593 Query End:633 Subject Strand: POSITIVE Subject Start: 593 Subject End: 633 ................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ctaaactgaatatagtagatttttggaggtgaatatatttt.......................................................................................................................................................................................... ................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ctaaactgaatatagtagatttttggaggtgaatatatttt.......................................................................................................................................................................................... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUAGAACUCUCCAUUUAAUAUGUUAUUGCAAUAUUUUUAAAUAUGUAUAUAAUUAAAAAUAAAAAAAUAUUACAAAGAAAUUUUAACAUAAUUUCUGUAUAUAUUCAAUAAUAAAAAAUAAAUUUUUUCUUUAUAAAAGUUACUGAUAUUACAUUUUUAUAUUUUAAAAUAAAUAUUGAAAUUAAAGUAAAAUUUAAAUGUAUAUUCAUAAUAAUAUUUUACUUUUUCGUAAAAUCUAUAAAAAAAAAUUUUAUAAUAAUAUAAAUCUUUAAAAAAUGAUAAAAAUUUAAAUGUAUAUCUAUAAUAAUAUAAAUUUUUUUUUUAUUUUCUUUUACAUCAAAUAAAAAAAAUUUCUUUAAUCAAAAUUUUAUAAAUAAAUCAAUACUUAUUUUUAAUGUAUAUUCAUAAUAAUAAAAAUAGAAAAAAUUAUCAUCUUUUUCUUUAAAUAAAUUCUAAAUUUCAAAAGCCUUUUAUUUUUUUUUAAUUUCAUUACAUAUAACAUAAUUUACAAAAAACAUAACUAGCACUUUAAAAUUUAAUUAUUAAUUUUAUAAAUAAAUACUUGACAAAAUAUCAAAUAACUUGUAAAAUUCUAAACUGAAUAUAGUAGAUUUUUGGAGGUGAAUAUAUUUUAUGAAAAGAACAUUUCAACCAAAUCAAAGAAAAAGAAAAAAAGAUCAUGGUUUUAGAGCUAGAAUGUCAACUAAAAAUGGAAGAAAAGUUUUAAAAAGAAGAAGAGUUAGAGGAAGAGCUAAAUUAUCAGCAUAAAGCCCAGUGAAAAACACUGGGUUUUUACCUAGAGUUGUUUUUGGAGACAUG .......((((((..((((.((((((((...(((((((((.(((....))).)))))))))....(((((.....(((((((.......)))))))....))))))))))))).......((((((((((........((((.(((...((((((..........(((((((.((((((....((((((((((....(((......)))......))))))))))...((((((...(((((((((((.((((((......(((((.((((........)))).)))))..((((....))))....)))))).)))))))))))....))))))...........................................)))))).))))))).))))))...))))))).........))))))))))....(((((((((((......((((((...(((.((((((....((((((((((..((((.........................................(((((((........)))))))...........((((.(((((((......((((.(((((.(((..((((....))))))).))))).))))....))))))).(((((......)))))......)))).))))...))))))))))...)))))).))).)))))).((..(((....)))..))..........))))))))))).....(((....(((........)))..(((((((((((.....)))))))))))..)))...))))....)))))).... (-128.23) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CAUGUCUCCAAAAACAACUCUAGGUAAAAACCCAGUGUUUUUCACUGGGCUUUAUGCUGAUAAUUUAGCUCUUCCUCUAACUCUUCUUCUUUUUAAAACUUUUCUUCCAUUUUUAGUUGACAUUCUAGCUCUAAAACCAUGAUCUUUUUUUCUUUUUCUUUGAUUUGGUUGAAAUGUUCUUUUCAUAAAAUAUAUUCACCUCCAAAAAUCUACUAUAUUCAGUUUAGAAUUUUACAAGUUAUUUGAUAUUUUGUCAAGUAUUUAUUUAUAAAAUUAAUAAUUAAAUUUUAAAGUGCUAGUUAUGUUUUUUGUAAAUUAUGUUAUAUGUAAUGAAAUUAAAAAAAAAUAAAAGGCUUUUGAAAUUUAGAAUUUAUUUAAAGAAAAAGAUGAUAAUUUUUUCUAUUUUUAUUAUUAUGAAUAUACAUUAAAAAUAAGUAUUGAUUUAUUUAUAAAAUUUUGAUUAAAGAAAUUUUUUUUAUUUGAUGUAAAAGAAAAUAAAAAAAAAAUUUAUAUUAUUAUAGAUAUACAUUUAAAUUUUUAUCAUUUUUUAAAGAUUUAUAUUAUUAUAAAAUUUUUUUUUAUAGAUUUUACGAAAAAGUAAAAUAUUAUUAUGAAUAUACAUUUAAAUUUUACUUUAAUUUCAAUAUUUAUUUUAAAAUAUAAAAAUGUAAUAUCAGUAACUUUUAUAAAGAAAAAAUUUAUUUUUUAUUAUUGAAUAUAUACAGAAAUUAUGUUAAAAUUUCUUUGUAAUAUUUUUUUAUUUUUAAUUAUAUACAUAUUUAAAAAUAUUGCAAUAACAUAUUAAAUGGAGAGUUCUAA ....((((((....(((((..((((.....(((((((.....)))))))......(((((....))))).......................................))))..)))))........((.....................((((((((((((((((((.(((((((((..........))))).))))...))))).......((.((((.......(((((((.((((((((((((.....))))))))...)))).)))))))......((((((((((((.(((..((((.((((((...((((.(((((....))))).)))).)))))).))))..))))))))))))))))))).)).))))))))))))).............((((((((....((((.(((((.....((((((((((((((.(((..((.((((((((.......))))))))...))..))).((((((....(((((((((((.((((((.((.(((((((.....((((((............)))))).))))))).)).)))))).)))))))))))...))))))...((((((((((.(((..(((......))).)))))))))))))....))))))))))))))((((((.((((((((....(((((((.....(((((.......)))))......)))))))...((((.(((((((.......))))))).)))))))))))).))))))....))))).))))..))))))))..))..............))))))....... (-139.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 638 50 1 141 92 NC_003454:FN0001|5end_Chromosomal_replication_initiator_protein_dnaA_641778..642008_NEGATIVE 272 810 765 86 49 NC_003454:FN1519|5end_23S_rRNA_methyltransferase_24792..25022_NEGATIVE 263 360 311 120 73 NC_003454:FN0931|5end_Phosphohydrolase_(MUTT/NUDIX_family_protein)_1584550..1584780_NEGATIVE 242 774 737 142 102 NC_003454:FN1238|5end_hypothetical_protein_1896291..1896521_NEGATIVE 228 332 294 43 4 NC_003454:FN1673|5end_hypothetical_protein_171858..172088_NEGATIVE 226 789 741 81 34 NC_003454:FN1512|5end_Phophatidylinositol-4-phosphate_5-kinase_15845..16075_POSITIVE 225 748 706 114 60 NC_003454:FN0112|5end_hypothetical_protein_746353..746583_POSITIVE 224 753 711 207 166 NC_003454:FN1387|5end_Metal_dependent_hydrolase_2043603..2043833_NEGATIVE 221 469 428 47 13 NC_003454:FN0117|5end_O6-methylguanine-DNA_methyltransferase_750338..750568_POSITIVE 219 748 701 231 176 NC_003454:FN0051|5end_hypothetical_protein_688929..689159_NEGATIVE 215 716 675 49 8 NC_003454:FN0570|5end_hypothetical_protein_1220912..1221142_POSITIVE 214 770 728 222 176 NC_003454:FN1301|5end_ABC_transporter_ATP-binding_protein_1957669..1957899_POSITIVE 212 779 734 73 30 NC_003454:FN0186|5end_Cytochrome_c-type_biogenesis_protein_ccdA_810853..811083_POSITIVE 211 760 714 76 32 NC_003454:FN1058|5end_hypothetical_protein_1704802..1705032_POSITIVE 208 777 744 231 201 NC_003454:FN1377|5end_CITG_protein_2025212..2025442_POSITIVE 207 165 122 145 108 NC_003454:FN0160|5end_hypothetical_protein_788279..788509_POSITIVE 206 480 433 79 39 NC_003454:FN0113|5end_Heat-inducible_transcription_repressor_hrcA_746557..746787_POSITIVE 205 460 415 65 19 NC_003454:FN0799|5end_Isoamylase_1459826..1460056_NEGATIVE 203 778 734 84 34 NC_003454:FN0237|5end_ABC_transporter_permease_protein_862128..862358_NEGATIVE 203 806 762 70 14 NC_003454:FN1593|5end_NADH-ubiquinone_oxidoreductase_104360..104590_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 272 810 765 76 39 NC_003454:FN1520|3end_UDP-N-acetylglucosamine_1-carboxyvinyltransferase_24802..24952_NEGATIVE 226 776 742 33 1 NC_003454:FN0238|3end_hypothetical_protein_862382..862532_NEGATIVE 214 770 728 132 86 NC_003454:FN1300|3end_Integral_membrane_protein_1957659..1957809_POSITIVE 210 810 764 92 53 NC_003454:FN1315|3end_hypothetical_protein_1968921..1969071_NEGATIVE 209 716 672 83 36 NC_003454:FN1307|3end_CDP-diacylglycerol--glycerol-3-phosphate_3-phosphatidyltransferase_1964056..1964206_POSITIVE 207 165 122 115 78 NC_003454:FN0159|3end_hypothetical_protein_788329..788479_POSITIVE 206 480 433 42 2 NC_003454:FN0112|3end_hypothetical_protein_746600..746750_POSITIVE 203 806 762 70 14 NC_003454:FN1594|3end_Nitrogen_fixation_protein_RNFG_104360..104510_NEGATIVE 201 716 673 144 107 NC_003454:FN0550|3end_Mannose-1-phosphate_guanylyl_transferase_(GDP)_1203166..1203316_POSITIVE 199 340 298 110 64 NC_003454:FN0644|3end_UROPORPHYRINOGEN-III_SYNTHASE_1299887..1300037_NEGATIVE 199 767 737 77 51 NC_003454:FN0427|3end_Orotate_phosphoribosyltransferase_1070120..1070270_POSITIVE 198 776 736 123 79 NC_003454:FN1859|3end_Major_outer_membrane_protein_348549..348699_NEGATIVE 193 771 738 83 48 NC_003454:FN0562|3end_Hypothetical_cytosolic_protein_1215379..1215529_POSITIVE 192 726 682 54 22 NC_003454:FN0620|3end_hypothetical_protein_1279819..1279969_POSITIVE 192 46 14 113 82 NC_003454:FN1678|3end_hypothetical_protein_174543..174693_POSITIVE 192 100 68 49 15 NC_003454:FN1526|3end_Fusobacterium_outer_membrane_protein_family_31752..31902_NEGATIVE 191 640 591 59 19 NC_003454:FN1490|3end_4-hydroxybenzoate_octaprenyltransferase_2171834..2171984_NEGATIVE 191 806 765 80 38 NC_003454:FN0191|3end_ATP-dependent_DNA_helicase_recG_817265..817415_POSITIVE 189 799 761 52 11 NC_003454:FN0979|3end_hypothetical_protein_1632544..1632694_POSITIVE 188 339 292 117 73 NC_003454:FN1497|3end_Multidrug_resistance_protein_2_1014..1164_NEGATIVE