Origin IGS: ggctaaattcttttttttcgttagtaatcaaacagctatataatttctgtgccaaaaatacaaattttattttaattaccattcgtttaacatagaaaaaaatcgtatcaaacagcatctgtgagaaccttgaatacaatggtgtcctttgaaaagagatcgattctccggccacgggtca .........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 tgacccgtggccggagaatcgatctcttttcaaaggacaccattgtattcaaggttctcacagatgctgtttgatacgatttttttctatgttaaacgaatggtaattaaaataaaatttgtatttttggcacagaaattatatagctgtttgattactaacgaaaaaaaagaatttagcc Mask Tandem Repeat Region ================================================ ggctaaattcttttttttcgttagtaatcaaacagctatataatttctgtgccaaaaatacaaattttattttaattaccattcgtttaacatagaaaaaaatcgtatcaaacagcatctgtgagaaccttgaatacaatggtgtcctttgaaaagagatcgattctccggccacgggtca Find is-nt database================================================ Query_seq: TF1162:TF1163|TF1162:TF1163:Na+/H+ antiporter:two-component system response regulator:->->:1242904..1243084 181 ggctaaattcttttttttcgttagtaatcaaacagctatataatttctgtgccaaaaatacaaattttattttaattaccattcgtttaacatagaaaaaaatcgtatcaaacagcatctgtgagaaccttgaatacaatggtgtcctttgaaaagagatcgattctccggccacgggtca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1162:TF1163|TF1162:TF1163:Na+/H+ antiporter:two-component system response regulator:->->:1242904..1243084 181 ggctaaattcttttttttcgttagtaatcaaacagctatataatttctgtgccaaaaatacaaattttattttaattaccattcgtttaacatagaaaaaaatcgtatcaaacagcatctgtgagaaccttgaatacaatggtgtcctttgaaaagagatcgattctccggccacgggtca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1162:TF1163|TF1162:TF1163:Na+/H+ antiporter:two-component system response regulator:->->:1242904..1243084 181 ggctaaattcttttttttcgttagtaatcaaacagctatataatttctgtgccaaaaatacaaattttattttaattaccattcgtttaacatagaaaaaaatcgtatcaaacagcatctgtgagaaccttgaatacaatggtgtcctttgaaaagagatcgattctccggccacgggtca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ggctaaattcttttttttcgttagtaatcaaacagctatataatttctgtgccaaaaatacaaattttattttaattaccattcgtttaacatagaaaaaaatcgtatcaaacagcatctgtgagaaccttgaatacaatggtgtcctttgaaaagagatcgattctccggccacgggtca Predict ORF larger than 30AA ================================================ Protein_Len: 58 Strand: - Start: 2 End: 175 . S F E K K E N T I L C S Y L K Q A L F V F K I K I V M R K V Y F F I T D F L M Q S F R S Y L P T R Q F S I S E G A M ...... ggctaaattcttttttttcgttagtaatcaaacagctatataatttctgtgccaaaaatacaaattttattttaattaccattcgtttaacatagaaaaaaatcgtatcaaacagcatctgtgagaaccttgaatacaatggtgtcctttgaaaagagatcgattctccggccacgggtca 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================================================ ggctaaattcttttttttcgttagtaatcaaacagctatataatttctgtgccaaaaatacaaattttattttaattaccattcgtttaacatagaaaaaaatcgtatcaaacagcatctgtgagaaccttgaatacaatggtgtcctttgaaaagagatcgattctccggccacgggtca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF1162:TF1163|TF1162:TF1163:Na+/H+ antiporter:two-component system response regulator:->->:1242904..1243084 181 ggctaaattcttttttttcgttagtaatcaaacagctatataatttctgtgccaaaaatacaaattttattttaattaccattcgtttaacatagaaaaaaatcgtatcaaacagcatctgtgagaaccttgaatacaatggtgtcctttgaaaagagatcgattctccggccacgggtca Intra-Species Hit: Count: 1 Min: 19 Max: 181 Len: 163 Subject: tfor_TF1162_TF1163|Na+/H+ antiporter:two-component system response regulator|POSITIVE:POSITIVE|[1242904,1243084]|181 HSP 1 e-value: 4.0E-75 bit: 281.0 Len: 163 Query Start:19 Query End:181 Subject Strand: POSITIVE Subject Start: 19 Subject End: 181 ..................cgttagtaatcaaacagctatataatttctgtgccaaaaatacaaattttattttaattaccattcgtttaacatagnnnnnnntcgtatcaaacagcatctgtgagaaccttgaatacaatggtgtcctttgaaaagagatcgattctccggccacgggtca ..................cgttagtaatcaaacagctatataatttctgtgccaaaaatacaaattttattttaattaccattcgtttaacatagaaaaaaatcgtatcaaacagcatctgtgagaaccttgaatacaatggtgtcctttgaaaagagatcgattctccggccacgggtca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CGUUAGUAAUCAAACAGCUAUAUAAUUUCUGUGCCAAAAAUACAAAUUUUAUUUUAAUUACCAUUCGUUUAACAUAGAAAAAAAUCGUAUCAAACAGCAUCUGUGAGAACCUUGAAUACAAUGGUGUCCUUUGAAAAGAGAUCGAUUCUCCGGCCACGGGUCA ...((((.........)))).......((((((((................((((((.(((((((.((((((....((......))...((..((((...))))..))...))))))..)))))))....)))))).((((.....)))).)).))))))... (-25.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGACCCGUGGCCGGAGAAUCGAUCUCUUUUCAAAGGACACCAUUGUAUUCAAGGUUCUCACAGAUGCUGUUUGAUACGAUUUUUUUCUAUGUUAAACGAAUGGUAAUUAAAAUAAAAUUUGUAUUUUUGGCACAGAAAUUAUAUAGCUGUUUGAUUACUAACG .....(((((..((((((((((((..........(((.(((.(((....))))))))).((((...))))..))).))))))))).))))).........(((((((((((...........(((((((...)))))))..........)))))))))))... (-28.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 339 159 115 44 3 tfor:TF3155|5end_glycosyltransferase,_group_2_family_protein_3390417..3390647_POSITIVE 321 158 121 184 140 tfor:TF1932|5end_pigmentation_and_extracellular_proteinase_regulator_2078542..2078772_POSITIVE 304 155 121 58 21 tfor:TF0414|5end_N-ethylammeline_chlorohydrolase_431789..432019_POSITIVE 289 160 115 231 177 tfor:TF2950|5end_chloromuconate_cycloisomerase_3157399..3157629_POSITIVE 288 159 112 60 21 tfor:TF0994|5end_maltose_O-acetyltransferase_1049127..1049357_POSITIVE 287 159 111 151 102 tfor:TF1970|5end_oxaloacetate_decarboxylase,_beta_subunit_2116804..2117034_POSITIVE 283 160 112 191 148 tfor:TF1246|5end_protease,_with_chaperone_function_1329390..1329620_POSITIVE 282 125 89 75 39 tfor:TF0223|5end_conserved_hypothetical_protein_249622..249852_POSITIVE 281 160 126 193 150 tfor:TF1275|5end_transcription-repair_coupling_factor_1357866..1358096_POSITIVE 279 157 124 57 27 tfor:TF2526|5end_outer_membrane_protein,_TonB_dependent_receptor_2705547..2705777_POSITIVE 279 159 112 105 65 tfor:TF1228|5end_conserved_hypothetical_protein_1314103..1314333_POSITIVE 278 159 112 211 164 tfor:TF2918|5end_hypothetical_protein_3114084..3114314_POSITIVE 275 159 113 61 3 tfor:TF1429|5end_S-adenosyl-methyltransferase_1513927..1514157_POSITIVE 275 159 126 117 79 tfor:TF0409|5end_conserved_hypothetical_protein_426240..426470_POSITIVE 274 129 89 183 140 tfor:TF2413|5end_hypothetical_protein_2590376..2590606_POSITIVE 274 158 111 79 25 tfor:TF0720|5end_ABC_transporter,_permease_component_770046..770276_POSITIVE 270 160 121 152 114 tfor:TF2886|5end_RNA_methylase_SpoU_family_3075651..3075881_POSITIVE 270 159 126 144 101 tfor:TF1003|5end_conserved_hypothetical_protein;_possible_secreted_glycosylhydrolase_1058177..1058407_POSITIVE 264 158 111 195 148 tfor:TF0304|5end_peptidyl-prolyl_cis-trans_isomerase_329567..329797_POSITIVE 263 159 121 71 36 tfor:TF2793|5end_possible_L-lysine_2,3-aminomutase_2977661..2977891_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 332 160 113 126 83 tfor:TF2887|3end_phosphomannomutase/phosphoglucomutase_3077792..3077942_POSITIVE 304 155 121 58 21 tfor:TF0413|3end_succinyl-diaminopimelate_desuccinylase_431869..432019_POSITIVE 282 125 89 57 21 tfor:TF0222|3end_conserved_hypothetical_protein_249684..249834_POSITIVE 281 160 126 142 99 tfor:TF1274|3end_hypothetical_protein_1357895..1358045_POSITIVE 279 157 124 42 12 tfor:TF2525|3end_conserved_hypothetical_protein_2705612..2705762_POSITIVE 275 159 126 121 83 tfor:TF0408|3end_possible_gliding_motility-related_lipoprotein_426324..426474_POSITIVE 274 129 89 120 77 tfor:TF2412|3end_outer_membrane_protein_2590393..2590543_POSITIVE 271 159 119 36 2 tfor:TF3154|3end_conserved_hypothetical_protein_3390489..3390639_POSITIVE 270 159 126 119 76 tfor:TF1002|3end_replicative_DNA_helicase_1058232..1058382_POSITIVE 265 146 101 61 4 tfor:TF2181|3end_conserved_hypothetical_protein_2354963..2355113_POSITIVE 265 159 122 50 4 tfor:TF1428|3end_conserved_hypothetical_protein_1513996..1514146_POSITIVE 264 159 113 136 83 tfor:TF0311|3end_conserved_hypothetical_protein_336383..336533_POSITIVE 261 159 124 71 32 tfor:TF0959|3end_periplasmic_protease_1008540..1008690_POSITIVE 257 157 119 149 108 tfor:TF1506|3end_outer_membrane_receptor,_TonB-dependent_1614637..1614787_POSITIVE 252 160 125 36 7 tfor:TF2442|3end_heat_shock_protein_60_2620271..2620421_POSITIVE 251 155 112 92 47 tfor:TF3080|3end_conserved_hypothetical_protein_3314423..3314573_POSITIVE 251 133 95 146 100 tfor:TF1747|3end_hypothetical_protein_1881497..1881647_POSITIVE 251 155 112 92 47 tfor:TF1458|3end_conserved_hypothetical_protein_1548381..1548531_POSITIVE 249 159 119 53 16 tfor:TF2332|3end_signal_peptidase_I_2492613..2492763_POSITIVE 245 160 122 60 16 tfor:TF1815|3end_conserved_hypothetical_protein_1957442..1957592_POSITIVE