Origin IGS: tgtgattaaactaagagtgaataaaagtgaaaattttgaaagctcttttttaaattgacttttttaaataattgatataatatatgtatataaagatgattattattttgaataatgattattatattgtaactgtaacttaactataaattttataactctactgtatattgaaaggaggccaaa .........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 tttggcctcctttcaatatacagtagagttataaaatttatagttaagttacagttacaatataataatcattattcaaaataataatcatctttatatacatatattatatcaattatttaaaaaagtcaatttaaaaaagagctttcaaaattttcacttttattcactcttagtttaatcaca Mask Tandem Repeat Region ================================================ tgtgattaaactaagagtgaataaaagtgaaaattttgaaagctcttttttaaattgacttttttaaataattgatataatatatgtatataaagatgattattattttgaataatgattattatattgtaactgtaacttaactataaattttataactctactgtatattgaaaggaggccaaa Find is-nt database================================================ Query_seq: FN0270:FN0271|FN0270:FN0271:GTP-binding protein era:Enoyl-CoA hydratase:->->:897801..897986 186 tgtgattaaactaagagtgaataaaagtgaaaattttgaaagctcttttttaaattgacttttttaaataattgatataatatatgtatataaagatgattattattttgaataatgattattatattgtaactgtaacttaactataaattttataactctactgtatattgaaaggaggccaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN0270:FN0271|FN0270:FN0271:GTP-binding protein era:Enoyl-CoA hydratase:->->:897801..897986 186 tgtgattaaactaagagtgaataaaagtgaaaattttgaaagctcttttttaaattgacttttttaaataattgatataatatatgtatataaagatgattattattttgaataatgattattatattgtaactgtaacttaactataaattttataactctactgtatattgaaaggaggccaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN0270:FN0271|FN0270:FN0271:GTP-binding protein era:Enoyl-CoA hydratase:->->:897801..897986 186 tgtgattaaactaagagtgaataaaagtgaaaattttgaaagctcttttttaaattgacttttttaaataattgatataatatatgtatataaagatgattattattttgaataatgattattatattgtaactgtaacttaactataaattttataactctactgtatattgaaaggaggccaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgtgattaaactaagagtgaataaaagtgaaaattttgaaagctcttttttaaattgacttttttaaataattgatataatatatgtatataaagatgattattattttgaataatgattattatattgtaactgtaacttaactataaattttataactctactgtatattgaaaggaggccaaa Predict ORF larger than 30AA ================================================ Protein_Len: 39 Strand: - Start: 9 End: 125 ........ V L L S Y F H F N Q F S K K L N V K K F L Q Y L I H I Y L H N N N Q I I I I M ............................................................. tgtgattaaactaagagtgaataaaagtgaaaattttgaaagctcttttttaaattgacttttttaaataattgatataatatatgtatataaagatgattattattttgaataatgattattatattgtaactgtaacttaactataaattttataactctactgtatattgaaaggaggccaaa 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: 82 Start: 54 End: 83 .....................................................ATTGACTTTTTTAAATAATTGATATAATAT....................................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ tgtgattaaactaagagtgaataaaagtgaaaattttgaaagctcttttttaaattgacttttttaaataattgatataatatatgtatataaagatgattattattttgaataatgattattatattgtaactgtaacttaactataaattttataactctactgtatattgaaaggaggccaaa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: FN0270:FN0271|FN0270:FN0271:GTP-binding protein era:Enoyl-CoA hydratase:->->:897801..897986 186 tgtgattaaactaagagtgaataaaagtgaaaattttgaaagctcttttttaaattgacttttttaaataattgatataatatatgtatataaagatgattattattttgaataatgattattatattgtaactgtaacttaactataaattttataactctactgtatattgaaaggaggccaaa Intra-Species Hit: Count: 1 Min: 1 Max: 186 Len: 186 Subject: NC_003454_FN0270_FN0271|GTP-binding protein era:Enoyl-CoA hydratase|POSITIVE:POSITIVE|[897801,897986]|186 HSP 1 e-value: 5.0E-25 bit: 115.0 Len: 58 Query Start:129 Query End:186 Subject Strand: POSITIVE Subject Start: 129 Subject End: 186 ................................................................................................................................gtaactgtaacttaactataaattttataactctactgtatattgaaaggaggccaaa ................................................................................................................................gtaactgtaacttaactataaattttataactctactgtatattgaaaggaggccaaa HSP 2 e-value: 3.0E-17 bit: 89.7 Len: 45 Query Start:1 Query End:45 Subject Strand: POSITIVE Subject Start: 1 Subject End: 45 tgtgattaaactaagagtgaataaaagtgaaaattttgaaagctc............................................................................................................................................. tgtgattaaactaagagtgaataaaagtgaaaattttgaaagctc............................................................................................................................................. Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGUGAUUAAACUAAGAGUGAAUAAAAGUGAAAAUUUUGAAAGCUCUUUUUUAAAUUGACUUUUUUAAAUAAUUGAUAUAAUAUAUGUAUAUAAAGAUGAUUAUUAUUUUGAAUAAUGAUUAUUAUAUUGUAACUGUAACUUAACUAUAAAUUUUAUAACUCUACUGUAUAUUGAAAGGAGGCCAAA .....(((((..((((((.....(((((....)))))....)))))).))))).(((.(((((((......(..(((((.((((..((((....((((((((((((.....))))))))))))....))))..)))).......((((.....)))).........)))))..)))))))).))). (-26.40) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUGGCCUCCUUUCAAUAUACAGUAGAGUUAUAAAAUUUAUAGUUAAGUUACAGUUACAAUAUAAUAAUCAUUAUUCAAAAUAAUAAUCAUCUUUAUAUACAUAUAUUAUAUCAAUUAUUUAAAAAAGUCAAUUUAAAAAAGAGCUUUCAAAAUUUUCACUUUUAUUCACUCUUAGUUUAAUCACA ................((.((...(((((.((((((.....(((((((((.........((((((..((.((((((......)))))).))..))))))...................((((((........))))))....)))))....)))).....))))))..)))))..)).))...... (-12.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 189 50 2 200 144 NC_003454:FN0646|5end_Glutamyl-tRNA_reductase_1303289..1303519_NEGATIVE 189 74 34 94 59 NC_003454:FN1628|5end_LSU_ribosomal_protein_L18P_133948..134178_NEGATIVE 184 179 132 74 33 NC_003454:FN1176|5end_Hypothetical_cytosolic_protein_1837826..1838056_NEGATIVE 181 158 115 150 112 NC_003454:FN0308|5end_Iron(III)-binding_protein_943022..943252_POSITIVE 180 179 151 175 148 NC_003454:FN1348|5end_ABC_transporter_ATP-binding_protein_2001141..2001371_NEGATIVE 172 48 1 185 138 NC_003454:FN0556|5end_hypothetical_protein_1209000..1209230_NEGATIVE 171 45 21 150 125 NC_003454:FN0954|5end_Hypothetical_cytosolic_protein_1611616..1611846_NEGATIVE 168 65 26 153 116 NC_003454:FN1180|5end_hypothetical_protein_1842588..1842818_NEGATIVE 168 53 13 198 158 NC_003454:FN0607|5end_metal_dependent_phosphohydrolase_1261564..1261794_POSITIVE 166 47 1 88 36 NC_003454:FN0112|5end_hypothetical_protein_746353..746583_POSITIVE 162 50 8 65 27 NC_003454:FN0520|5end_hypothetical_protein_1172295..1172525_NEGATIVE 161 62 38 47 22 NC_003454:FN1459|5end_Phospho-N-acetylmuramoyl-pentapeptide-_transferase_2141360..2141590_NEGATIVE 160 180 133 230 179 NC_003454:FN1167|5end_beta-methylgalactoside_transporter_inner_membrane_component_1825538..1825768_POSITIVE 159 170 139 128 97 NC_003454:FN2078|5end_Transcriptional_regulator,_DeoR_family_590266..590496_NEGATIVE 158 84 43 138 98 NC_003454:FN0710|5end_hypothetical_protein_1368875..1369105_POSITIVE 156 106 66 229 192 NC_003454:FN0635|5end_tRNA_pseudouridine_synthase_B_1294993..1295223_NEGATIVE 156 180 134 194 152 NC_003454:FN0547|5end_recombinase_A_1199643..1199873_POSITIVE 155 50 6 109 57 NC_003454:FN1016|5end_Lipid_A_biosynthesis_lauroyl_acyltransferase_1670589..1670819_POSITIVE 155 80 38 197 146 NC_003454:FN1981|5end_Transposase_483299..483529_POSITIVE 154 174 134 229 196 NC_003454:FN1246|5end_Lipooligosaccharide_cholinephosphotransferase_1903192..1903422_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 189 50 2 99 43 NC_003454:FN0647|3end_Hypothetical_cytosolic_protein_1303390..1303540_NEGATIVE 189 74 34 67 32 NC_003454:FN1629|3end_50S_ribosomal_protein_L6_133975..134125_NEGATIVE 184 179 132 111 70 NC_003454:FN1177|3end_hypothetical_protein_1837789..1837939_NEGATIVE 174 75 42 123 83 NC_003454:FN1060|3end_Molybdate_metabolism_regulator_1707032..1707182_NEGATIVE 168 53 13 73 33 NC_003454:FN0606|3end_Translation_initiation_inhibitor_1261519..1261669_POSITIVE 168 106 67 66 22 NC_003454:FN0387|3end_Fusobacterium_outer_membrane_protein_family_1026596..1026746_POSITIVE 166 98 51 67 19 NC_003454:FN1002|3end_Adenosylmethionine-8-amino-7-oxononanoate_aminotransferase_1658176..1658326_POSITIVE 165 50 7 112 62 NC_003454:FN0359|3end_ATP_synthase_gamma_chain,_sodium_ion_specific_989995..990145_NEGATIVE 162 50 8 72 34 NC_003454:FN0521|3end_DNA_integration/recombination/invertion_protein_1172288..1172438_NEGATIVE 159 170 139 52 21 NC_003454:FN2079|3end_ABC_transporter_ATP-binding_protein_590342..590492_NEGATIVE 158 84 43 71 31 NC_003454:FN0709|3end_Virulence_factor_mviN_1368888..1369038_POSITIVE 155 80 38 70 19 NC_003454:FN1980|3end_Transporter_483252..483402_POSITIVE 154 146 103 87 40 NC_003454:FN0651|3end_Ribosomal_large_subunit_pseudouridine_synthase_D_1310260..1310410_POSITIVE 153 88 44 101 67 NC_003454:FN1480|3end_MG2+_transporter_MGTE_2161314..2161464_NEGATIVE 151 120 78 141 102 NC_003454:FN0859|3end_hypothetical_protein_1520720..1520870_NEGATIVE 151 168 133 127 91 NC_003454:FN2098|3end_MRP-family_nucleotide-binding_protein_607373..607523_NEGATIVE 151 58 13 94 53 NC_003454:FN1894|3end_BAX_protein_381731..381881_NEGATIVE 149 55 22 116 79 NC_003454:FN0424|3end_Dihydroorotate_dehydrogenase_1068113..1068263_POSITIVE 147 50 6 82 32 NC_003454:FN0100|3end_Flavodoxins/hemoproteins_735119..735269_NEGATIVE 145 75 37 115 79 NC_003454:FN1267|3end_hypothetical_protein_1923054..1923204_NEGATIVE