Origin IGS: gataaatgcttaagatgattatatagtaaatgatgttgataaaaaaactatcaacatcattttttttctgtaaatataaataatattcattgacaaaatatgatatttgaaatattataaaagtaagtactaactattattaaattatggaggaaactatgagaaaaaatttttttggaaaattatttgggctgacactttta .........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 taaaagtgtcagcccaaataattttccaaaaaaattttttctcatagtttcctccataatttaataatagttagtacttacttttataatatttcaaatatcatattttgtcaatgaatattatttatatttacagaaaaaaaatgatgttgatagtttttttatcaacatcatttactatataatcatcttaagcatttatc Mask Tandem Repeat Region ================================================ gataaatgcttaagatgattatatagtaaatgatgttgataaaaaaactatcaacatcattttttttctgtaaatataaataatattcattgacaaaatatgatatttgaaatattataaaagtaagtactaactattattaaattatggaggaaactatgagaaaaaatttttttggaaaattatttgggctgacactttta Find is-nt database================================================ Query_seq: FN0049:FN0050|FN0049:FN0050:hypothetical protein:Fumarate reductase flavoprotein subunit:->->:686980..687182 203 gataaatgcttaagatgattatatagtaaatgatgttgataaaaaaactatcaacatcattttttttctgtaaatataaataatattcattgacaaaatatgatatttgaaatattataaaagtaagtactaactattattaaattatggaggaaactatgagaaaaaatttttttggaaaattatttgggctgacactttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN0049:FN0050|FN0049:FN0050:hypothetical protein:Fumarate reductase flavoprotein subunit:->->:686980..687182 203 gataaatgcttaagatgattatatagtaaatgatgttgataaaaaaactatcaacatcattttttttctgtaaatataaataatattcattgacaaaatatgatatttgaaatattataaaagtaagtactaactattattaaattatggaggaaactatgagaaaaaatttttttggaaaattatttgggctgacactttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN0049:FN0050|FN0049:FN0050:hypothetical protein:Fumarate reductase flavoprotein subunit:->->:686980..687182 203 gataaatgcttaagatgattatatagtaaatgatgttgataaaaaaactatcaacatcattttttttctgtaaatataaataatattcattgacaaaatatgatatttgaaatattataaaagtaagtactaactattattaaattatggaggaaactatgagaaaaaatttttttggaaaattatttgggctgacactttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gataaatgcttaagatgattatatagtaaatgatgttgataaaaaaactatcaacatcattttttttctgtaaatataaataatattcattgacaaaatatgatatttgaaatattataaaagtaagtactaactattattaaattatggaggaaactatgagaaaaaatttttttggaaaattatttgggctgacactttta Predict ORF larger than 30AA ================================================ Protein_Len: 39 Strand: - Start: 2 End: 118 . Y I S L I I I Y Y I I N I F F S D V D N K K Q L Y L Y Y E N V F Y S I Q F I M ..................................................................................... gataaatgcttaagatgattatatagtaaatgatgttgataaaaaaactatcaacatcattttttttctgtaaatataaataatattcattgacaaaatatgatatttgaaatattataaaagtaagtactaactattattaaattatggaggaaactatgagaaaaaatttttttggaaaattatttgggctgacactttta 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: 89 Start: 89 End: 118 ........................................................................................ATTGACAAAATATGATATTTGAAATATTAT..................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ gataaatgcttaagatgattatatagtaaatgatgttgataaaaaaactatcaacatcattttttttctgtaaatataaataatattcattgacaaaatatgatatttgaaatattataaaagtaagtactaactattattaaattatggaggaaactatgagaaaaaatttttttggaaaattatttgggctgacactttta Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 85 HP_score: -9.8 Tail_Score: -3.89956 Start: 31 End: 59 Full_Region: tttacagaaaaaaaa tgatgttgatag ttttt ttatcaacatca tttactatataatca ..............................tgatgttgatagtttttttatcaacatca................................................................................................................................................ Find igs database================================================ Query_seq: FN0049:FN0050|FN0049:FN0050:hypothetical protein:Fumarate reductase flavoprotein subunit:->->:686980..687182 203 gataaatgcttaagatgattatatagtaaatgatgttgataaaaaaactatcaacatcattttttttctgtaaatataaataatattcattgacaaaatatgatatttgaaatattataaaagtaagtactaactattattaaattatggaggaaactatgagaaaaaatttttttggaaaattatttgggctgacactttta Intra-Species Hit: Count: 1 Min: 1 Max: 203 Len: 203 Subject: NC_003454_FN0049_FN0050|hypothetical protein:Fumarate reductase flavoprotein subunit|POSITIVE:POSITIVE|[686980,687182]|203 HSP 1 e-value: 4.0E-72 bit: 272.0 Len: 203 Query Start:1 Query End:203 Subject Strand: POSITIVE Subject Start: 1 Subject End: 203 gataaatgcttaagatgattatatagtaaatgatgttgatnnnnnnnctatcaacatcannnnnnnnctgtaaatataaataatattcattgacaaaatatgatatttgaaatattataaaagtaagtactaactattattaaattatggaggaaactatgagaaaaaannnnnnnggaaaattatttgggctgacactttta gataaatgcttaagatgattatatagtaaatgatgttgataaaaaaactatcaacatcattttttttctgtaaatataaataatattcattgacaaaatatgatatttgaaatattataaaagtaagtactaactattattaaattatggaggaaactatgagaaaaaatttttttggaaaattatttgggctgacactttta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAUAAAUGCUUAAGAUGAUUAUAUAGUAAAUGAUGUUGAUAAAAAAACUAUCAACAUCAUUUUUUUUCUGUAAAUAUAAAUAAUAUUCAUUGACAAAAUAUGAUAUUUGAAAUAUUAUAAAAGUAAGUACUAACUAUUAUUAAAUUAUGGAGGAAACUAUGAGAAAAAAUUUUUUUGGAAAAUUAUUUGGGCUGACACUUUUA .......(((((.(((((((.......((((((((((((((.......))))))))))))))(((((((((((.....(((((((.............((((((((.....))))))))..(((....)))...)))))))...))))))))))).(((.(((((....))))).)))..))))))))))))........... (-35.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAAGUGUCAGCCCAAAUAAUUUUCCAAAAAAAUUUUUUCUCAUAGUUUCCUCCAUAAUUUAAUAAUAGUUAGUACUUACUUUUAUAAUAUUUCAAAUAUCAUAUUUUGUCAAUGAAUAUUAUUUAUAUUUACAGAAAAAAAAUGAUGUUGAUAGUUUUUUUAUCAACAUCAUUUACUAUAUAAUCAUCUUAAGCAUUUAUC ...((((((......(((((((.(((.....................................((((.(((........))).)))).......((((........)))).....))).)))))))...............(((((((((((((((.....)))))))))))))))..................))))))... (-27.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 242 63 28 94 59 NC_003454:FN0812|5end_Hypothetical_cytosolic_protein_1471051..1471281_POSITIVE 225 163 125 227 183 NC_003454:FN1041|5end_Acetyltransferase_1692081..1692311_POSITIVE 217 46 23 225 202 NC_003454:FN1672|5end_Membrane-bound_O-acyltransferase_171293..171523_NEGATIVE 186 170 129 215 176 NC_003454:FN1678|5end_hypothetical_protein_174287..174517_POSITIVE 183 91 56 92 60 NC_003454:FN0306|5end_Iron(III)_dicitrate_transport_system_permease_protein_fecD_941100..941330_POSITIVE 181 195 158 215 189 NC_003454:FN1824|5end_putative_manganese-dependent_inorganic_pyrophosphatase_313896..314126_NEGATIVE 180 167 121 194 161 NC_003454:FN1280|5end_Endonuclease_1938442..1938672_POSITIVE 180 70 21 67 27 NC_003454:FN0008|5end_quinolinate_synthetase_648010..648240_POSITIVE 180 98 51 147 85 NC_003454:FN1600|5end_tRNA_pseudouridine_synthase_A_109812..110042_NEGATIVE 176 88 49 84 49 NC_003454:FN1538|5end_Arsenical_pump-driving_ATPase_52299..52529_NEGATIVE 175 95 53 90 50 NC_003454:FN0867|5end_Long-chain-fatty-acid--CoA_ligase_1527048..1527278_NEGATIVE 174 79 32 91 30 NC_003454:FN1293|5end_hypothetical_protein_1952147..1952377_NEGATIVE 171 44 2 110 68 NC_003454:FN0237|5end_ABC_transporter_permease_protein_862128..862358_NEGATIVE 170 156 122 230 200 NC_003454:FN1825|5end_hypothetical_protein_313994..314224_POSITIVE 167 90 49 91 49 NC_003454:FN1862|5end_L-beta-lysine_5,6-aminomutase_beta_subunit_353122..353352_NEGATIVE 165 44 7 200 154 NC_003454:FN0075|5end_Ethanolamine_utilization_protein_eutP_713699..713929_POSITIVE 161 92 59 211 174 NC_003454:FN0710|5end_hypothetical_protein_1368875..1369105_POSITIVE 161 62 28 203 165 NC_003454:FN0599|5end_Transposase_1253833..1254063_POSITIVE 161 62 28 200 162 NC_003454:FN0275|5end_Transposase_901560..901790_NEGATIVE 160 90 49 228 189 NC_003454:FN1310|5end_TonB_protein_1965876..1966106_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 298 62 22 71 27 NC_003454:FN0123|3end_ATPase_755027..755177_POSITIVE 253 77 31 91 50 NC_003454:FN0927|3end_hypothetical_protein_1581693..1581843_NEGATIVE 242 63 28 71 36 NC_003454:FN0811|3end_hypothetical_protein_1471108..1471258_POSITIVE 237 62 28 78 40 NC_003454:FN0120|3end_hypothetical_protein_752718..752868_NEGATIVE 213 60 19 44 1 NC_003454:FN0254|3end_Fusobacterium_outer_membrane_protein_family_881390..881540_POSITIVE 186 62 28 63 29 NC_003454:FN0049|3end_hypothetical_protein_686919..687069_POSITIVE 183 91 56 81 49 NC_003454:FN0305|3end_Iron(III)_dicitrate-binding_protein_941169..941319_POSITIVE 180 98 51 127 65 NC_003454:FN1601|3end_Hypothetical_cytosolic_protein_109832..109982_NEGATIVE 178 190 148 65 27 NC_003454:FN0620|3end_hypothetical_protein_1279819..1279969_POSITIVE 177 70 28 98 47 NC_003454:FN0905|3end_hypothetical_protein_1563781..1563931_NEGATIVE 175 69 22 91 44 NC_003454:FN0926|3end_GTP_pyrophosphokinase_1581671..1581821_POSITIVE 173 65 28 72 22 NC_003454:FN0556|3end_hypothetical_protein_1208380..1208530_NEGATIVE 171 68 25 74 27 NC_003454:FN1624|3end_preprotein_translocase_SecY_131080..131230_NEGATIVE 168 192 151 110 70 NC_003454:FN1120|3end_phosphoenolpyruvate_carboxykinase_1763101..1763251_POSITIVE 168 193 156 69 29 NC_003454:FN0331|3end_hypothetical_protein_966168..966318_POSITIVE 167 90 49 91 49 NC_003454:FN1863|3end_L-beta-lysine_5,6-aminomutase_alpha_subunit_353122..353272_NEGATIVE 165 88 47 124 90 NC_003454:FN0509|3end_Transposase_1158884..1159034_NEGATIVE 165 88 47 124 90 NC_003454:FN1883|3end_Transposase_370118..370268_POSITIVE 163 64 28 68 29 NC_003454:FN1913|3end_hydrolase_(HD_superfamily)_410054..410204_NEGATIVE 161 92 59 144 107 NC_003454:FN0709|3end_Virulence_factor_mviN_1368888..1369038_POSITIVE