Origin IGS: attataggataggaaagtaaaagtaatctaataaaaaattctattgacaattagaaaaagataacctataatgtacactatataaaaataaaaaggagatagaatatttatgttaggattaattaattacaatacaactatattaaacccgatagttccctaagagggatttgtatttagtttattctgacctagatgcaagtccaatttgttatataaatattttggactgtgtctatgggaaataattttaaatattttattatttataatattaaccattaggacaatttcttaatggtttttttatttagggaggttatttaaaa .........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 ttttaaataacctccctaaataaaaaaaccattaagaaattgtcctaatggttaatattataaataataaaatatttaaaattatttcccatagacacagtccaaaatatttatataacaaattggacttgcatctaggtcagaataaactaaatacaaatccctcttagggaactatcgggtttaatatagttgtattgtaattaattaatcctaacataaatattctatctcctttttatttttatatagtgtacattataggttatctttttctaattgtcaatagaattttttattagattacttttactttcctatcctataat Mask Tandem Repeat Region ================================================ attataggataggaaagtaaaagtaatctaataaaaaattctattgacaattagaaaaagataacctataatgtacactatataaaaataaaaaggagatagaatatttatgttaggattaattaattacaatacaactatattaaacccgatagttccctaagagggatttgtatttagtttattctgacctagatgcaagtccaatttgttatataaatattttggactgtgtctatgggaaataattttaaatattttattatttataatattaaccattaggacaatttcttaatggtttttttatttagggaggttatttaaaa Find is-nt database================================================ Query_seq: FN0106:FN0107|FN0106:FN0107:hypothetical protein:Sodium/proline symporter:->->:741523..741851 329 attataggataggaaagtaaaagtaatctaataaaaaattctattgacaattagaaaaagataacctataatgtacactatataaaaataaaaaggagatagaatatttatgttaggattaattaattacaatacaactatattaaacccgatagttccctaagagggatttgtatttagtttattctgacctagatgcaagtccaatttgttatataaatattttggactgtgtctatgggaaataattttaaatattttattatttataatattaaccattaggacaatttcttaatggtttttttatttagggaggttatttaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN0106:FN0107|FN0106:FN0107:hypothetical protein:Sodium/proline symporter:->->:741523..741851 329 attataggataggaaagtaaaagtaatctaataaaaaattctattgacaattagaaaaagataacctataatgtacactatataaaaataaaaaggagatagaatatttatgttaggattaattaattacaatacaactatattaaacccgatagttccctaagagggatttgtatttagtttattctgacctagatgcaagtccaatttgttatataaatattttggactgtgtctatgggaaataattttaaatattttattatttataatattaaccattaggacaatttcttaatggtttttttatttagggaggttatttaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN0106:FN0107|FN0106:FN0107:hypothetical protein:Sodium/proline symporter:->->:741523..741851 329 attataggataggaaagtaaaagtaatctaataaaaaattctattgacaattagaaaaagataacctataatgtacactatataaaaataaaaaggagatagaatatttatgttaggattaattaattacaatacaactatattaaacccgatagttccctaagagggatttgtatttagtttattctgacctagatgcaagtccaatttgttatataaatattttggactgtgtctatgggaaataattttaaatattttattatttataatattaaccattaggacaatttcttaatggtttttttatttagggaggttatttaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 attataggataggaaagtaaaagtaatctaataaaaaattctattgacaattagaaaaagataacctataatgtacactatataaaaataaaaaggagatagaatatttatgttaggattaattaattacaatacaactatattaaacccgatagttccctaagagggatttgtatttagtttattctgacctagatgcaagtccaatttgttatataaatattttggactgtgtctatgggaaataattttaaatattttattatttataatattaaccattaggacaatttcttaatggtttttttatttagggaggttatttaaaa Predict ORF larger than 30AA ================================================ Protein_Len: 43 Strand: - Start: 163 End: 291 .................................................................................................................................................................. S P N T N L K N Q G L H L D L K N Y L Y K P S H R H S I I K F I K N N I I N V M L V M ...................................... Protein_Len: 31 Strand: - Start: 31 End: 123 .............................. Y F I R N V I L F L Y G I I Y V I Y F Y F P S L I N I N P N M .............................................................................................................................................................................................................. attataggataggaaagtaaaagtaatctaataaaaaattctattgacaattagaaaaagataacctataatgtacactatataaaaataaaaaggagatagaatatttatgttaggattaattaattacaatacaactatattaaacccgatagttccctaagagggatttgtatttagtttattctgacctagatgcaagtccaatttgttatataaatattttggactgtgtctatgggaaataattttaaatattttattatttataatattaaccattaggacaatttcttaatggtttttttatttagggaggttatttaaaa 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: 91 Start: 43 End: 72 ..........................................ATTGACAATTAGAAAAAGATAACCTATAAT................................................................................................................................................................................................................................................................. PromScan Matrix: RpoD-17 Strand: - Score: 81 Start: 262 End: 291 .....................................................................................................................................................................................................................................................................ATTGTCCTAATGGTTAATATTATAAATAAT...................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ attataggataggaaagtaaaagtaatctaataaaaaattctattgacaattagaaaaagataacctataatgtacactatataaaaataaaaaggagatagaatatttatgttaggattaattaattacaatacaactatattaaacccgatagttccctaagagggatttgtatttagtttattctgacctagatgcaagtccaatttgttatataaatattttggactgtgtctatgggaaataattttaaatattttattatttataatattaaccattaggacaatttcttaatggtttttttatttagggaggttatttaaaa Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 80 HP_score: -7.7 Tail_Score: -4.42594 Start: 157 End: 169 Full_Region: ATTAAACCCGATAGT TCCCT AAG AGGGA TTTGTATTTAGTTTA ............................................................................................................................................................TCCCTAAGAGGGA................................................................................................................................................................ TransTerm Strand: + Conf: 100 HP_score: -7.1 Tail_Score: -5.95539 Start: 279 End: 301 Full_Region: TATTTATAATATTAA CCATTAGGA CAATT TCTTAATGG TTTTTTTATTTAGGG ......................................................................................................................................................................................................................................................................................CCATTAGGACAATTTCTTAATGG............................ Find igs database================================================ Query_seq: FN0106:FN0107|FN0106:FN0107:hypothetical protein:Sodium/proline symporter:->->:741523..741851 329 attataggataggaaagtaaaagtaatctaataaaaaattctattgacaattagaaaaagataacctataatgtacactatataaaaataaaaaggagatagaatatttatgttaggattaattaattacaatacaactatattaaacccgatagttccctaagagggatttgtatttagtttattctgacctagatgcaagtccaatttgttatataaatattttggactgtgtctatgggaaataattttaaatattttattatttataatattaaccattaggacaatttcttaatggtttttttatttagggaggttatttaaaa Intra-Species Hit: Count: 1 Min: 1 Max: 243 Len: 243 Subject: NC_003454_FN0106_FN0107|hypothetical protein:Sodium/proline symporter|POSITIVE:POSITIVE|[741523,741851]|329 HSP 1 e-value: 5.0E-79 bit: 295.0 Len: 149 Query Start:95 Query End:243 Subject Strand: POSITIVE Subject Start: 95 Subject End: 243 ..............................................................................................ggagatagaatatttatgttaggattaattaattacaatacaactatattaaacccgatagttccctaagagggatttgtatttagtttattctgacctagatgcaagtccaatttgttatataaatattttggactgtgtctatggga...................................................................................... ..............................................................................................ggagatagaatatttatgttaggattaattaattacaatacaactatattaaacccgatagttccctaagagggatttgtatttagtttattctgacctagatgcaagtccaatttgttatataaatattttggactgtgtctatggga...................................................................................... HSP 2 e-value: 5.0E-8 bit: 60.0 Len: 30 Query Start:1 Query End:30 Subject Strand: POSITIVE Subject Start: 1 Subject End: 30 attataggataggaaagtaaaagtaatcta........................................................................................................................................................................................................................................................................................................... attataggataggaaagtaaaagtaatcta........................................................................................................................................................................................................................................................................................................... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUAUAGGAUAGGAAAGUAAAAGUAAUCUAAUAAAAAAUUCUAUUGACAAUUAGAAAAAGAUAACCUAUAAUGUACACUAUAUAAAAAUAAAAAGGAGAUAGAAUAUUUAUGUUAGGAUUAAUUAAUUACAAUACAACUAUAUUAAACCCGAUAGUUCCCUAAGAGGGAUUUGUAUUUAGUUUAUUCUGACCUAGAUGCAAGUCCAAUUUGUUAUAUAAAUAUUUUGGACUGUGUCUAUGGGA ....((((((((....((((...(((((((((((((.((((((((..(...(((...........)))..(((((...)))))...........)..)))))))).))).))))).))))).....))))...........((((((..(((....((((.....)))).)))..)))))))))))))).((((((((((.((((((..((((.....))))..)))))))))))))).)).. (-49.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCCCAUAGACACAGUCCAAAAUAUUUAUAUAACAAAUUGGACUUGCAUCUAGGUCAGAAUAAACUAAAUACAAAUCCCUCUUAGGGAACUAUCGGGUUUAAUAUAGUUGUAUUGUAAUUAAUUAAUCCUAACAUAAAUAUUCUAUCUCCUUUUUAUUUUUAUAUAGUGUACAUUAUAGGUUAUCUUUUUCUAAUUGUCAAUAGAAUUUUUUAUUAGAUUACUUUUACUUUCCUAUCCUAUAAU ........((((.((((((.................))))))........((((.((((((.............((((.....))))......(((.(((((.((((((.....))))))))))).)))........))))))))))..................))))..((((((((.((.............(((((((((....)))))).)))..............)).)))))))) (-36.16) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 258 197 154 63 14 NC_003454:FN0854|5end_Glucose-1-phosphate_adenylyltransferase_1513487..1513717_NEGATIVE 214 186 148 82 43 NC_003454:FN0636|5end_hypothetical_protein_1295170..1295400_POSITIVE 209 163 130 39 4 NC_003454:FN0183|5end_Glycerol-3-phosphate_dehydrogenase_808574..808804_NEGATIVE 208 206 179 62 38 NC_003454:FN1070|5end_glucose-inhibited_division_protein_A_1717121..1717351_POSITIVE 207 231 201 189 157 NC_003454:FN1957|5end_hypothetical_protein_460827..461057_NEGATIVE 206 233 196 213 178 NC_003454:FN1089|5end_hypothetical_protein_1733042..1733272_POSITIVE 204 170 133 168 138 NC_003454:FN0437|5end_Allophanate_hydrolase_1079642..1079872_NEGATIVE 203 193 155 96 55 NC_003454:FN1092|5end_hypothetical_protein_1737267..1737497_POSITIVE 200 210 161 57 10 NC_003454:FN0713|5end_Chromate_transport_protein_1371333..1371563_POSITIVE 200 188 144 125 74 NC_003454:FN0514|5end_hypothetical_protein_1163431..1163661_POSITIVE 199 238 191 198 150 NC_003454:FN0681|5end_Transcriptional_regulator,_MarR_family_1336115..1336345_POSITIVE 197 209 163 53 11 NC_003454:FN0698|5end_DNA_integration/recombination/invertion_protein_1356611..1356841_POSITIVE 197 177 147 133 87 NC_003454:FN0033|5end_hypothetical_protein_674969..675199_NEGATIVE 197 201 162 198 161 NC_003454:FN1588|5end_hypothetical_protein_99556..99786_POSITIVE 195 197 153 185 142 NC_003454:FN1986|5end_hypothetical_protein_488917..489147_POSITIVE 194 165 121 207 160 NC_003454:FN0398|5end_Dipeptide_transport_system_permease_protein_dppC_1036758..1036988_POSITIVE 191 200 155 193 149 NC_003454:FN1455|5end_UDP-N-acetylenolpyruvoylglucosamine_reductase_2136519..2136749_NEGATIVE 188 159 114 189 140 NC_003454:FN0419|5end_aspartate_carbamoyltransferase_catalytic_subunit_1059713..1059943_POSITIVE 188 213 181 222 190 NC_003454:FN2122|5end_Phenylalanyl-tRNA_synthetase_beta_chain_632194..632424_NEGATIVE 187 200 155 90 45 NC_003454:FN1423|5end_Flavoprotein_2090070..2090300_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 214 197 159 42 1 NC_003454:FN0855|3end_glucose-1-phosphate_adenylyltransferase_1513508..1513658_NEGATIVE 203 193 155 87 46 NC_003454:FN1091|3end_Sigma_factor_sigB_regulation_protein_rsbU_1737338..1737488_POSITIVE 200 210 161 60 13 NC_003454:FN0712|3end_Chromate_transport_protein_1371416..1371566_POSITIVE 189 210 161 92 34 NC_003454:FN0787|3end_Transposase_1443908..1444058_POSITIVE 189 217 182 44 12 NC_003454:FN0697|3end_Alanyl-tRNA_synthetase_1356675..1356825_POSITIVE 188 159 114 127 78 NC_003454:FN0418|3end_pyrimidine_regulatory_protein_PyrR_1059731..1059881_POSITIVE 187 200 155 65 20 NC_003454:FN1424|3end_ACYL-COA_dehydrogenase,_short-chain_specific_2090095..2090245_NEGATIVE 187 136 91 46 5 NC_003454:FN1214|3end_Fe-S_oxidoreductase_1874166..1874316_NEGATIVE 185 175 136 149 109 NC_003454:FN1287|3end_Bacterial_Protein_Translation_Initiation_Factor_1_(IF-1)_1944415..1944565_NEGATIVE 185 206 176 35 8 NC_003454:FN0183|3end_Glycerol-3-phosphate_dehydrogenase_807078..807228_NEGATIVE 184 199 160 112 72 NC_003454:FN0378|3end_UDP-glucose_4-epimerase_1009222..1009372_NEGATIVE 183 194 155 78 34 NC_003454:FN0227|3end_hypothetical_protein_854114..854264_NEGATIVE 183 160 115 91 44 NC_003454:FN1704|3end_Serine_protease_201497..201647_POSITIVE 181 203 162 51 1 NC_003454:FN0194|3end_Dipeptide_transport_system_permease_protein_dppC_820743..820893_POSITIVE 181 86 62 66 39 NC_003454:FN2102|3end_ABC_transporter_ATP-binding_protein_613152..613302_POSITIVE 181 239 201 67 32 NC_003454:FN1983|3end_Alkyl_hydroperoxide_reductase_C22_protein_485265..485415_POSITIVE 180 200 151 63 17 NC_003454:FN0731|3end_hypothetical_protein_1388333..1388483_POSITIVE 179 196 156 147 106 NC_003454:FN0706|3end_Hypothetical_cytosolic_protein_1365802..1365952_POSITIVE 177 198 155 105 58 NC_003454:FN0984|3end_Tetracenomycin_polyketide_synthesis_O-methyltransferase_tcmP_1636486..1636636_NEGATIVE 175 57 17 46 2 NC_003454:FN0109|3end_hypothetical_protein_744333..744483_NEGATIVE