Origin IGS: aaactactacatgattaaatcgttattggtatattattttatcctgttttgtatattattagtatctaaagaatatacaaagataaataataaattctgttgaacaaataacatttgtaatttacaatattgcaatatcgatatattgatgtatatttataattgtaaaaaggatatacaagcttcttttatccattaaattaaaacttcaaatcaaagcataaaacgattgattataagactaatataacacttgatataaagtaaatttccacaaaacaactcttaccgtacaatcagtaggtttaaatttaaagtattactcctttcaatcagattaaaatactggatgta .........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 tacatccagtattttaatctgattgaaaggagtaatactttaaatttaaacctactgattgtacggtaagagttgttttgtggaaatttactttatatcaagtgttatattagtcttataatcaatcgttttatgctttgatttgaagttttaatttaatggataaaagaagcttgtatatcctttttacaattataaatatacatcaatatatcgatattgcaatattgtaaattacaaatgttatttgttcaacagaatttattatttatctttgtatattctttagatactaataatatacaaaacaggataaaataatataccaataacgatttaatcatgtagtagttt Mask Tandem Repeat Region ================================================ aaactactacatgattaaatcgttattggtatattattttatcctgttttgtatattattagtatctaaagaatatacaaagataaataataaattctgttgaacaaataacatttgtaatttacaatattgcaatatcgatatattgatgtatatttataattgtaaaaaggatatacaagcttcttttatccattaaattaaaacttcaaatcaaagcataaaacgattgattataagactaatataacacttgatataaagtaaatttccacaaaacaactcttaccgtacaatcagtaggtttaaatttaaagtattactcctttcaatcagattaaaatactggatgta Find is-nt database================================================ Query_seq: TF0570:TF0571|TF0570:TF0571:possible transcriptional regulator:hypothetical protein:->->:603088..603441 354 aaactactacatgattaaatcgttattggtatattattttatcctgttttgtatattattagtatctaaagaatatacaaagataaataataaattctgttgaacaaataacatttgtaatttacaatattgcaatatcgatatattgatgtatatttataattgtaaaaaggatatacaagcttcttttatccattaaattaaaacttcaaatcaaagcataaaacgattgattataagactaatataacacttgatataaagtaaatttccacaaaacaactcttaccgtacaatcagtaggtttaaatttaaagtattactcctttcaatcagattaaaatactggatgta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0570:TF0571|TF0570:TF0571:possible transcriptional regulator:hypothetical protein:->->:603088..603441 354 aaactactacatgattaaatcgttattggtatattattttatcctgttttgtatattattagtatctaaagaatatacaaagataaataataaattctgttgaacaaataacatttgtaatttacaatattgcaatatcgatatattgatgtatatttataattgtaaaaaggatatacaagcttcttttatccattaaattaaaacttcaaatcaaagcataaaacgattgattataagactaatataacacttgatataaagtaaatttccacaaaacaactcttaccgtacaatcagtaggtttaaatttaaagtattactcctttcaatcagattaaaatactggatgta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0570:TF0571|TF0570:TF0571:possible transcriptional regulator:hypothetical protein:->->:603088..603441 354 aaactactacatgattaaatcgttattggtatattattttatcctgttttgtatattattagtatctaaagaatatacaaagataaataataaattctgttgaacaaataacatttgtaatttacaatattgcaatatcgatatattgatgtatatttataattgtaaaaaggatatacaagcttcttttatccattaaattaaaacttcaaatcaaagcataaaacgattgattataagactaatataacacttgatataaagtaaatttccacaaaacaactcttaccgtacaatcagtaggtttaaatttaaagtattactcctttcaatcagattaaaatactggatgta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aaactactacatgattaaatcgttattggtatattattttatcctgttttgtatattattagtatctaaagaatatacaaagataaataataaattctgttgaacaaataacatttgtaatttacaatattgcaatatcgatatattgatgtatatttataattgtaaaaaggatatacaagcttcttttatccattaaattaaaacttcaaatcaaagcataaaacgattgattataagactaatataacacttgatataaagtaaatttccacaaaacaactcttaccgtacaatcagtaggtttaaatttaaagtattactcctttcaatcagattaaaatactggatgta Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: + Start: 11 End: 100 .......... M I K S L L V Y Y F I L F C I L L V S K E Y T K I N N K F C .............................................................................................................................................................................................................................................................. Protein_Len: 40 Strand: - Start: 37 End: 156 .................................... K I R N Q I N N T D L S Y V F I F L L N Q Q V F L M Q L K C Y Q L I S I N I Y M ...................................................................................................................................................................................................... aaactactacatgattaaatcgttattggtatattattttatcctgttttgtatattattagtatctaaagaatatacaaagataaataataaattctgttgaacaaataacatttgtaatttacaatattgcaatatcgatatattgatgtatatttataattgtaaaaaggatatacaagcttcttttatccattaaattaaaacttcaaatcaaagcataaaacgattgattataagactaatataacacttgatataaagtaaatttccacaaaacaactcttaccgtacaatcagtaggtttaaatttaaagtattactcctttcaatcagattaaaatactggatgta 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: 83 Start: 99 End: 128 ..................................................................................................GTTGAACAAATAACATTTGTAATTTACAAT.................................................................................................................................................................................................................................. PromScan Matrix: RpoD-17 Strand: + Score: 83 Start: 268 End: 297 ...........................................................................................................................................................................................................................................................................ATTTCCACAAAACAACTCTTACCGTACAAT......................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ aaactactacatgattaaatcgttattggtatattattttatcctgttttgtatattattagtatctaaagaatatacaaagataaataataaattctgttgaacaaataacatttgtaatttacaatattgcaatatcgatatattgatgtatatttataattgtaaaaaggatatacaagcttcttttatccattaaattaaaacttcaaatcaaagcataaaacgattgattataagactaatataacacttgatataaagtaaatttccacaaaacaactcttaccgtacaatcagtaggtttaaatttaaagtattactcctttcaatcagattaaaatactggatgta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF0570:TF0571|TF0570:TF0571:possible transcriptional regulator:hypothetical protein:->->:603088..603441 354 aaactactacatgattaaatcgttattggtatattattttatcctgttttgtatattattagtatctaaagaatatacaaagataaataataaattctgttgaacaaataacatttgtaatttacaatattgcaatatcgatatattgatgtatatttataattgtaaaaaggatatacaagcttcttttatccattaaattaaaacttcaaatcaaagcataaaacgattgattataagactaatataacacttgatataaagtaaatttccacaaaacaactcttaccgtacaatcagtaggtttaaatttaaagtattactcctttcaatcagattaaaatactggatgta Intra-Species Hit: Count: 1 Min: 1 Max: 354 Len: 354 Subject: tfor_TF0570_TF0571|possible transcriptional regulator:hypothetical protein|POSITIVE:POSITIVE|[603088,603441]|354 HSP 1 e-value: 0.0 bit: 702.0 Len: 354 Query Start:1 Query End:354 Subject Strand: POSITIVE Subject Start: 1 Subject End: 354 aaactactacatgattaaatcgttattggtatattattttatcctgttttgtatattattagtatctaaagaatatacaaagataaataataaattctgttgaacaaataacatttgtaatttacaatattgcaatatcgatatattgatgtatatttataattgtaaaaaggatatacaagcttcttttatccattaaattaaaacttcaaatcaaagcataaaacgattgattataagactaatataacacttgatataaagtaaatttccacaaaacaactcttaccgtacaatcagtaggtttaaatttaaagtattactcctttcaatcagattaaaatactggatgta aaactactacatgattaaatcgttattggtatattattttatcctgttttgtatattattagtatctaaagaatatacaaagataaataataaattctgttgaacaaataacatttgtaatttacaatattgcaatatcgatatattgatgtatatttataattgtaaaaaggatatacaagcttcttttatccattaaattaaaacttcaaatcaaagcataaaacgattgattataagactaatataacacttgatataaagtaaatttccacaaaacaactcttaccgtacaatcagtaggtttaaatttaaagtattactcctttcaatcagattaaaatactggatgta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAACUACUACAUGAUUAAAUCGUUAUUGGUAUAUUAUUUUAUCCUGUUUUGUAUAUUAUUAGUAUCUAAAGAAUAUACAAAGAUAAAUAAUAAAUUCUGUUGAACAAAUAACAUUUGUAAUUUACAAUAUUGCAAUAUCGAUAUAUUGAUGUAUAUUUAUAAUUGUAAAAAGGAUAUACAAGCUUCUUUUAUCCAUUAAAUUAAAACUUCAAAUCAAAGCAUAAAACGAUUGAUUAUAAGACUAAUAUAACACUUGAUAUAAAGUAAAUUUCCACAAAACAACUCUUACCGUACAAUCAGUAGGUUUAAAUUUAAAGUAUUACUCCUUUCAAUCAGAUUAAAAUACUGGAUGUA ....(((((.(((((......))))))))))........(((((..(((((((((((.((((...))))..))))))))))).............(((((((((.............(((((((.....(((((((((.(((((((....))))))).)).)))))))...(((((.............)))))..)))))))..((((.((((..((((.((....(((((((..(((((..........((((......))))...(((....))).....)))))..)).)))))..)).))))..)))).)))).........))))).))))..........))))).. (-50.22) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UACAUCCAGUAUUUUAAUCUGAUUGAAAGGAGUAAUACUUUAAAUUUAAACCUACUGAUUGUACGGUAAGAGUUGUUUUGUGGAAAUUUACUUUAUAUCAAGUGUUAUAUUAGUCUUAUAAUCAAUCGUUUUAUGCUUUGAUUUGAAGUUUUAAUUUAAUGGAUAAAAGAAGCUUGUAUAUCCUUUUUACAAUUAUAAAUAUACAUCAAUAUAUCGAUAUUGCAAUAUUGUAAAUUACAAAUGUUAUUUGUUCAACAGAAUUUAUUAUUUAUCUUUGUAUAUUCUUUAGAUACUAAUAAUAUACAAAACAGGAUAAAAUAAUAUACCAAUAACGAUUUAAUCAUGUAGUAGUUU (((((...((((((((...((((((((((((...((((...........((((((.....))).)))..(((((.((((((..(((((.((((((.(((((((((((((.......))))))............)).))))).))))))...))))).....))))))..))))))))).))))))...)))))))))).)))).....((.((((.(((((.....((((.....((((((...))))))...))))....(((((((((((((((((((((..((((...)))).)))))))))....)))).))))))))...))))).)))).))...)))))....... (-56.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 222 323 282 51 8 tfor:TF1669|5end_ATP_synthase,_gamma_subunit_1783566..1783796_POSITIVE 211 346 316 162 132 tfor:TF2131|5end_conserved_hypothetical_protein_2306867..2307097_POSITIVE 207 326 282 40 1 tfor:TF0403|5end_TPR_repeat_protein_422600..422830_POSITIVE 204 285 242 75 22 tfor:TF3026|5end_conserved_hypothetical_protein_3249137..3249367_POSITIVE 202 50 20 216 183 tfor:TF0806|5end_conserved_hypothetical_protein_863575..863805_POSITIVE 200 307 269 188 147 tfor:TF1046|5end_hypothetical_protein_1108178..1108408_POSITIVE 199 233 194 148 108 tfor:TF0738|5end_conserved_hypothetical_protein_788643..788873_POSITIVE 196 304 283 50 28 tfor:TF2974|5end_conserved_hypothetical_protein;_possible_hydrolase_3181418..3181648_POSITIVE 195 53 12 221 182 tfor:TF1917|5end_hypothetical_protein_2069997..2070227_POSITIVE 195 53 12 88 49 tfor:TF1918|5end_hypothetical_protein_2069864..2070094_POSITIVE 194 296 254 53 13 tfor:TF2724|5end_anti-sigma_factor_2898193..2898423_POSITIVE 189 287 246 227 184 tfor:TF0192|5end_hypothetical_protein_207446..207676_POSITIVE 186 49 10 129 83 tfor:TF1638|5end_conserved_hypothetical_protein_1747359..1747589_POSITIVE 186 307 283 63 36 tfor:TF1353|5end_conserved_hypothetical_protein;_possible_penicillinase_repressor_1432908..1433138_POSITIVE 185 193 151 99 52 tfor:TF2330|5end_conserved_hypothetical_protein_2489920..2490150_POSITIVE 184 319 273 199 140 tfor:TF2097|5end_glucose_inhibited_division_protein_A_2269137..2269367_POSITIVE 184 149 123 115 87 tfor:TF1143|5end_ABC_transporter,_ATP-binding/permease_component_1221704..1221934_POSITIVE 184 306 273 49 11 tfor:TF0426|5end_conserved_hypothetical_protein_444728..444958_POSITIVE 183 348 324 85 56 tfor:TF1047|5end_tRNA_pseudouridylate_synthetase_A_(pseudouridylate_synthase_I)_1108483..1108713_POSITIVE 182 293 251 187 141 tfor:TF0402|5end_conserved_hypothetical_protein_422107..422337_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 217 306 268 39 2 tfor:TF0112|3end_outer_membrane_protein_123027..123177_POSITIVE 211 346 316 131 101 tfor:TF2130|3end_conserved_hypothetical_protein;_possible_permease_2306916..2307066_POSITIVE 195 53 12 82 43 tfor:TF1916|3end_conserved_hypothetical_protein;_possible_ATPase_2069938..2070088_POSITIVE 187 67 25 61 13 tfor:TF3148|3end_hypoxanthine-guanine_phosphoribosyltransferase_3384271..3384421_POSITIVE 186 49 10 104 58 tfor:TF1636|3end_hypothetical_protein_1747414..1747564_POSITIVE 186 49 10 115 69 tfor:TF1637|3end_hypothetical_protein_1747425..1747575_POSITIVE 185 193 151 65 18 tfor:TF2329|3end_conserved_hypothetical_protein_2489966..2490116_POSITIVE 184 257 215 83 49 tfor:TF2299|3end_hypothetical_protein_2450247..2450397_POSITIVE 183 326 288 70 33 tfor:TF0475|3end_possible_transcriptional_regulator,_AraC_family_494825..494975_POSITIVE 182 293 251 128 82 tfor:TF0400|3end_conserved_hypothetical_protein_422128..422278_POSITIVE 180 248 206 100 64 tfor:TF2782|3end_conserved_hypothetical_protein_2967356..2967506_POSITIVE 179 54 26 135 101 tfor:TF1320|3end_beta-galactosidase_1401625..1401775_POSITIVE 177 298 252 95 51 tfor:TF1702|3end_conserved_hypothetical_protein_1822075..1822225_POSITIVE 177 340 291 112 68 tfor:TF0414|3end_N-ethylammeline_chlorohydrolase_433128..433278_POSITIVE 175 68 21 62 26 tfor:TF0021|3end_outer_membrane_phospholipase_A_16919..17069_POSITIVE 173 327 285 139 101 tfor:TF0494|3end_conserved_hypothetical_protein_520906..521056_POSITIVE 171 309 261 122 65 tfor:TF0383|3end_alkyl_hydroperoxide_reductase,_subunit_C_406056..406206_POSITIVE 170 307 271 137 88 tfor:TF1485|3end_conserved_hypothetical_protein_1587542..1587692_POSITIVE 169 55 13 140 87 tfor:TF0062|3end_conserved_hypothetical_protein_66180..66330_POSITIVE 168 178 131 111 54 tfor:TF0307|3end_conserved_hypothetical_protein_333750..333900_POSITIVE