Origin IGS: taataaaaaatcatttaaacacaaaaccgacacaataaataaaaaataaaacaacaatcaagccttattagattaaagtatatatgccttctatccatataagctatagctttttacttctacaaaagacaagaaaaaaggaattgcaaatgataaagcaaaaatatgatatttcttttacattcaacaaatagcttaaacaaaggagtgtgttaaaaaaagaaaaaaaaacaaacaaaagac .........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 gtcttttgtttgtttttttttctttttttaacacactcctttgtttaagctatttgttgaatgtaaaagaaatatcatatttttgctttatcatttgcaattccttttttcttgtcttttgtagaagtaaaaagctatagcttatatggatagaaggcatatatactttaatctaataaggcttgattgttgttttattttttatttattgtgtcggttttgtgtttaaatgattttttatta Mask Tandem Repeat Region ================================================ taataaaaaatcatttaaacacaaaaccgacacaataaataaaaaataaaacaacaatcaagccttattagattaaagtatatatgccttctatccatataagctatagctttttacttctacaaaagacaagaaaaaaggaattgcaaatgataaagcaaaaatatgatatttcttttacattcaacaaatagcttaaacaaaggagtgtgttaaaaaaagaaaaaaaaacaaacaaaagac Find is-nt database================================================ Query_seq: TF1361:TF1362|TF1361:TF1362:conserved hypothetical protein:hypothetical protein:->->:1443556..1443798 243 taataaaaaatcatttaaacacaaaaccgacacaataaataaaaaataaaacaacaatcaagccttattagattaaagtatatatgccttctatccatataagctatagctttttacttctacaaaagacaagaaaaaaggaattgcaaatgataaagcaaaaatatgatatttcttttacattcaacaaatagcttaaacaaaggagtgtgttaaaaaaagaaaaaaaaacaaacaaaagac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1361:TF1362|TF1361:TF1362:conserved hypothetical protein:hypothetical protein:->->:1443556..1443798 243 taataaaaaatcatttaaacacaaaaccgacacaataaataaaaaataaaacaacaatcaagccttattagattaaagtatatatgccttctatccatataagctatagctttttacttctacaaaagacaagaaaaaaggaattgcaaatgataaagcaaaaatatgatatttcttttacattcaacaaatagcttaaacaaaggagtgtgttaaaaaaagaaaaaaaaacaaacaaaagac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1361:TF1362|TF1361:TF1362:conserved hypothetical protein:hypothetical protein:->->:1443556..1443798 243 taataaaaaatcatttaaacacaaaaccgacacaataaataaaaaataaaacaacaatcaagccttattagattaaagtatatatgccttctatccatataagctatagctttttacttctacaaaagacaagaaaaaaggaattgcaaatgataaagcaaaaatatgatatttcttttacattcaacaaatagcttaaacaaaggagtgtgttaaaaaaagaaaaaaaaacaaacaaaagac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taataaaaaatcatttaaacacaaaaccgacacaataaataaaaaataaaacaacaatcaagccttattagattaaagtatatatgccttctatccatataagctatagctttttacttctacaaaagacaagaaaaaaggaattgcaaatgataaagcaaaaatatgatatttcttttacattcaacaaatagcttaaacaaaggagtgtgttaaaaaaagaaaaaaaaacaaacaaaagac Predict ORF larger than 30AA ================================================ Protein_Len: 40 Strand: + Start: 72 End: 191 ....................................................................... M K V Y M P S I H I S Y S F L L L Q K T R K K E L Q M I K Q K Y D I S F T F N K .................................................... Protein_Len: 44 Strand: - Start: 107 End: 238 .......................................................................................................... L K K S R C F V L F F S N C I I F C F Y S I E K V N L L Y S L C L L T N F F S F F V F M ..... Protein_Len: 30 Strand: - Start: 18 End: 107 ................. V C F R C L L Y F I F C C D L R I L N F Y I H R R D M Y A M ........................................................................................................................................ taataaaaaatcatttaaacacaaaaccgacacaataaataaaaaataaaacaacaatcaagccttattagattaaagtatatatgccttctatccatataagctatagctttttacttctacaaaagacaagaaaaaaggaattgcaaatgataaagcaaaaatatgatatttcttttacattcaacaaatagcttaaacaaaggagtgtgttaaaaaaagaaaaaaaaacaaacaaaagac Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ taataaaaaatcatttaaacacaaaaccgacacaataaataaaaaataaaacaacaatcaagccttattagattaaagtatatatgccttctatccatataagctatagctttttacttctacaaaagacaagaaaaaaggaattgcaaatgataaagcaaaaatatgatatttcttttacattcaacaaatagcttaaacaaaggagtgtgttaaaaaaagaaaaaaaaacaaacaaaagac Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF1361:TF1362|TF1361:TF1362:conserved hypothetical protein:hypothetical protein:->->:1443556..1443798 243 taataaaaaatcatttaaacacaaaaccgacacaataaataaaaaataaaacaacaatcaagccttattagattaaagtatatatgccttctatccatataagctatagctttttacttctacaaaagacaagaaaaaaggaattgcaaatgataaagcaaaaatatgatatttcttttacattcaacaaatagcttaaacaaaggagtgtgttaaaaaaagaaaaaaaaacaaacaaaagac Intra-Species Hit: Count: 1 Min: 59 Max: 214 Len: 156 Subject: tfor_TF1361_TF1362|conserved hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[1443556,1443798]|243 HSP 1 e-value: 2.0E-83 bit: 309.0 Len: 156 Query Start:59 Query End:214 Subject Strand: POSITIVE Subject Start: 59 Subject End: 214 ..........................................................caagccttattagattaaagtatatatgccttctatccatataagctatagctttttacttctacaaaagacaagaaaaaaggaattgcaaatgataaagcaaaaatatgatatttcttttacattcaacaaatagcttaaacaaaggagtgtgtt............................. ..........................................................caagccttattagattaaagtatatatgccttctatccatataagctatagctttttacttctacaaaagacaagaaaaaaggaattgcaaatgataaagcaaaaatatgatatttcttttacattcaacaaatagcttaaacaaaggagtgtgtt............................. Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CAAGCCUUAUUAGAUUAAAGUAUAUAUGCCUUCUAUCCAUAUAAGCUAUAGCUUUUUACUUCUACAAAAGACAAGAAAAAAGGAAUUGCAAAUGAUAAAGCAAAAAUAUGAUAUUUCUUUUACAUUCAACAAAUAGCUUAAACAAAGGAGUGUGUU ((..((((..((((.....(((....)))..))))......((((((((..((((((.(((((.....)))..)).))))))...((((..........)))).............................))))))))....))))..)).... (-20.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AACACACUCCUUUGUUUAAGCUAUUUGUUGAAUGUAAAAGAAAUAUCAUAUUUUUGCUUUAUCAUUUGCAAUUCCUUUUUUCUUGUCUUUUGUAGAAGUAAAAAGCUAUAGCUUAUAUGGAUAGAAGGCAUAUAUACUUUAAUCUAAUAAGGCUUG ....((..((((....((((((((((((.(((((((((.((((........))))..)))).)))))))))...((((((.(((.((....).).))).))))))..))))))))..(((((.((((.........)))).)))))..))))..)) (-24.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 256 66 26 222 166 tfor:TF1291|5end_response_regulator_(fimR__protein)_1371959..1372189_POSITIVE 229 68 21 231 180 tfor:TF0022|5end_two-component_system_sensor_histidine_kinase_17295..17525_POSITIVE 208 110 69 164 120 tfor:TF0433|5end_60_kDa_inner_membrane_protein_453357..453587_POSITIVE 203 63 27 148 119 tfor:TF0918|5end_conserved_hypothetical_protein;_possible_protease_957103..957333_POSITIVE 200 42 4 42 12 tfor:TF0478|5end_conserved_hypothetical_protein_498233..498463_POSITIVE 200 52 14 167 119 tfor:TF0109|5end_diacylglycerol_kinase_116073..116303_POSITIVE 197 123 81 67 27 tfor:TF2237|5end_two-component_system_response_regulator_involved_in_CTn_2412494..2412724_POSITIVE 196 60 28 58 19 tfor:TF2163|5end_hypothetical_protein_2340802..2341032_POSITIVE 195 67 23 181 146 tfor:TF2036|5end_possible_pyruvate_formate-lyase_activating_enzyme_2196302..2196532_POSITIVE 193 131 96 169 134 tfor:TF3020|5end_possible_sulfatase_3243559..3243789_POSITIVE 191 67 28 203 164 tfor:TF0107|5end_ion_channel_protein_113913..114143_POSITIVE 188 103 64 109 66 tfor:TF1764|5end_transcriptional_regulator;_possible_MerR_family_1901409..1901639_POSITIVE 188 39 2 115 71 tfor:TF1321|5end_conserved_hypothetical_protein_1401565..1401795_POSITIVE 187 59 20 200 159 tfor:TF0254|5end_hypothetical_protein_285260..285490_POSITIVE 184 56 20 65 20 tfor:TF2297|5end_hypothetical_protein_2449234..2449464_POSITIVE 183 101 65 98 62 tfor:TF1753|5end_topoisomerase_IV_subunit_A_1888130..1888360_POSITIVE 182 68 28 231 185 tfor:TF0428|5end_methylmalonyl-CoA_mutase,_beta_subunit_447809..448039_POSITIVE 179 112 80 107 79 tfor:TF0714|5end_endonuclease;_resolvase_764009..764239_POSITIVE 177 33 13 25 7 tfor:TF2090|5end_phosphoribosylglycinamide_formyltransferase_2258692..2258922_POSITIVE 177 141 106 149 114 tfor:TF0271|5end_oxidase/dehydrogenase_298262..298492_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 208 110 69 93 49 tfor:TF0432|3end_3-deoxy-manno-octulosonate_cytidylyltransferase_453366..453516_POSITIVE 204 67 24 51 1 tfor:TF0197|3end_hypothetical_protein_220885..221035_POSITIVE 203 63 27 125 96 tfor:TF0917|3end_DNA-damage-inducible_protein;_possible_SOS_response_protein_957160..957310_POSITIVE 200 52 25 128 106 tfor:TF2515|3end_outer_membrane_protein,_TonB_dependent_receptor_2694865..2695015_POSITIVE 200 42 4 134 104 tfor:TF0479|3end_transcriptional_regulator_498405..498555_POSITIVE 199 65 24 96 69 tfor:TF1969|3end_transcriptional_regulator,_AsnC_family_2116634..2116784_POSITIVE 197 123 81 71 31 tfor:TF2236|3end_two-component_system_histidine_kinase_involved_in_CTn_2412578..2412728_POSITIVE 196 103 67 91 56 tfor:TF1308|3end_50S_ribosomal_protein_L28_1387540..1387690_POSITIVE 193 131 96 117 82 tfor:TF3019|3end_tRNA_and_rRNA_cytosine-C5-methylase_3243587..3243737_POSITIVE 191 67 28 117 78 tfor:TF0105|3end_DNA-binding_stress_protein,_Dps_family_113907..114057_POSITIVE 188 103 64 101 58 tfor:TF1763|3end_K+-dependent_Na+/Ca+_exchanger_related-protein_1901481..1901631_POSITIVE 188 39 2 95 51 tfor:TF1320|3end_beta-galactosidase_1401625..1401775_POSITIVE 183 101 65 60 24 tfor:TF1752|3end_hypothetical_protein_1888172..1888322_POSITIVE 179 112 80 95 67 tfor:TF0713|3end_polypeptide_deformylase;_formylmethionine_deformylase;_764077..764227_POSITIVE 174 38 13 45 16 tfor:TF0509|3end_2-oxoglutarate_oxidoreductase,_gamma_subunit_536198..536348_POSITIVE 173 102 78 28 5 tfor:TF1776|3end_urocanate_hydratase_1916725..1916875_POSITIVE 171 63 27 53 17 tfor:TF2945|3end_DNA-directed_RNA_polymerase_beta'_subunit_3151802..3151952_POSITIVE 171 120 71 63 6 tfor:TF1999|3end_ArgK_protein_with_ATPase_and_kinase_domains_2153934..2154084_POSITIVE 170 123 83 60 25 tfor:TF3087|3end_conserved_hypothetical_protein_3322582..3322732_POSITIVE 170 62 29 108 59 tfor:TF1997|3end_ROK_family_transcriptional_regulator_2152686..2152836_POSITIVE