Origin IGS: catctctccttaaatttaccgaattaagcaacaaattacgcctttttgtagggttaagcaacaaaacgttgcctcttggtggttgagtggtttttacccgatctctataatcattcgcataaaccgcgttaaagtaaggatacagag .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ctctgtatccttactttaacgcggtttatgcgaatgattatagagatcgggtaaaaaccactcaaccaccaagaggcaacgttttgttgcttaaccctacaaaaaggcgtaatttgttgcttaattcggtaaatttaaggagagatg Mask Tandem Repeat Region ================================================ catctctccttaaatttaccgaattaagcaacaaattacgcctttttgtagggttaagcaacaaaacgttgcctcttggtggttgagtggtttttacccgatctctataatcattcgcataaaccgcgttaaagtaaggatacagag Find is-nt database================================================ Query_seq: AA02137:AA02139|AA02137:AA02139:transcriptional regulators (TetR/AcrR family):possible membrane protein:->->:1461154..1461300 147 catctctccttaaatttaccgaattaagcaacaaattacgcctttttgtagggttaagcaacaaaacgttgcctcttggtggttgagtggtttttacccgatctctataatcattcgcataaaccgcgttaaagtaaggatacagag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02137:AA02139|AA02137:AA02139:transcriptional regulators (TetR/AcrR family):possible membrane protein:->->:1461154..1461300 147 catctctccttaaatttaccgaattaagcaacaaattacgcctttttgtagggttaagcaacaaaacgttgcctcttggtggttgagtggtttttacccgatctctataatcattcgcataaaccgcgttaaagtaaggatacagag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02137:AA02139|AA02137:AA02139:transcriptional regulators (TetR/AcrR family):possible membrane protein:->->:1461154..1461300 147 catctctccttaaatttaccgaattaagcaacaaattacgcctttttgtagggttaagcaacaaaacgttgcctcttggtggttgagtggtttttacccgatctctataatcattcgcataaaccgcgttaaagtaaggatacagag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 catctctccttaaatttaccgaattaagcaacaaattacgcctttttgtagggttaagcaacaaaacgttgcctcttggtggttgagtggtttttacccgatctctataatcattcgcataaaccgcgttaaagtaaggatacagag Predict ORF larger than 30AA ================================================ Protein_Len: 44 Strand: + Start: 14 End: 145 ............. M Y R I K Q Q I T P F C R V K Q Q N V A S W W L S G F Y P I S I I I R I N R V K V R I Q .. Protein_Len: 48 Strand: - Start: 2 End: 145 . D R R L N V S N L L L N R R K T P N L L L V N G R P P Q T T K V R D R Y D N A Y V A N F Y P Y M .. catctctccttaaatttaccgaattaagcaacaaattacgcctttttgtagggttaagcaacaaaacgttgcctcttggtggttgagtggtttttacccgatctctataatcattcgcataaaccgcgttaaagtaaggatacagag 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: 82 End: 111 .................................................................................GTTGAGTGGTTTTTACCCGATCTCTATAAT.................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ catctctccttaaatttaccgaattaagcaacaaattacgcctttttgtagggttaagcaacaaaacgttgcctcttggtggttgagtggtttttacccgatctctataatcattcgcataaaccgcgttaaagtaaggatacagag Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 43 HP_score: -2.2 Tail_Score: -3.20494 Start: 57 End: 73 Full_Region: CTTTTTGTAGGGTTA AGCAAC AAAAC GTTGCC TCTTGGTGGTTGAGT ........................................................AGCAACAAAACGTTGCC.......................................................................... TransTerm Strand: + Conf: 50 HP_score: -5.7 Tail_Score: -2.51815 Start: 58 End: 72 Full_Region: TTTTTGTAGGGTTAA GCAAC AAAAC GTTGC CTCTTGGTGGTTGAG .........................................................GCAACAAAACGTTGC........................................................................... Find igs database================================================ Query_seq: AA02137:AA02139|AA02137:AA02139:transcriptional regulators (TetR/AcrR family):possible membrane protein:->->:1461154..1461300 147 catctctccttaaatttaccgaattaagcaacaaattacgcctttttgtagggttaagcaacaaaacgttgcctcttggtggttgagtggtttttacccgatctctataatcattcgcataaaccgcgttaaagtaaggatacagag Intra-Species Hit: Count: 1 Min: 1 Max: 147 Len: 147 Subject: aact_AA02137_AA02139|transcriptional regulators (TetR/AcrR family):possible membrane protein|POSITIVE:POSITIVE|[1461154,1461300]|147 HSP 1 e-value: 3.0E-78 bit: 291.0 Len: 147 Query Start:1 Query End:147 Subject Strand: POSITIVE Subject Start: 1 Subject End: 147 catctctccttaaatttaccgaattaagcaacaaattacgcctttttgtagggttaagcaacaaaacgttgcctcttggtggttgagtggtttttacccgatctctataatcattcgcataaaccgcgttaaagtaaggatacagag catctctccttaaatttaccgaattaagcaacaaattacgcctttttgtagggttaagcaacaaaacgttgcctcttggtggttgagtggtttttacccgatctctataatcattcgcataaaccgcgttaaagtaaggatacagag Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CAUCUCUCCUUAAAUUUACCGAAUUAAGCAACAAAUUACGCCUUUUUGUAGGGUUAAGCAACAAAACGUUGCCUCUUGGUGGUUGAGUGGUUUUUACCCGAUCUCUAUAAUCAUUCGCAUAAACCGCGUUAAAGUAAGGAUACAGAG ..(((.((((((...(((((((.................(((((.....)))))...(((((.....)))))...)))))))....(((((((.....(((.............)))...))))))).......))))))...))). (-30.72) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUCUGUAUCCUUACUUUAACGCGGUUUAUGCGAAUGAUUAUAGAGAUCGGGUAAAAACCACUCAACCACCAAGAGGCAACGUUUUGUUGCUUAACCCUACAAAAAGGCGUAAUUUGUUGCUUAAUUCGGUAAAUUUAAGGAGAGAUG .(((...((((((..((.((.((..(((.((((..((((((.(((....(((....))).)))..........(((((((.....)))))))...(((......))).))))))..)))).)))..)))).))..)))))).))).. (-32.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 313 99 51 128 79 aact:AA00015|5end_malate_dehydrogenase_6832..7062_POSITIVE 292 100 60 161 107 aact:AA00166|5end_conserved_hypothetical_protein_(possible_acetyltransferase)_117555..117785_POSITIVE 291 105 67 198 166 aact:AA02507|5end_penicillin-insensitive_murein_endopeptidase_A_1740058..1740288_POSITIVE 289 130 81 168 125 aact:AA00582|5end_conserved_hypothetical_protein_397904..398134_POSITIVE 282 88 41 122 66 aact:AA00068|5end_manganese_superoxide_dismutase_51410..51640_POSITIVE 281 100 51 129 76 aact:AA00993|5end_possible_D-tyrosyl-tRNA(Tyr)_deacylase_694488..694718_POSITIVE 275 97 51 225 179 aact:AA00550|5end_ferredoxin-type_protein_376444..376674_POSITIVE 273 130 87 167 111 aact:AA01918|5end_anaerobic_C4-dicarboxylate_transporter_1290931..1291161_POSITIVE 273 129 83 231 178 aact:AA01310|5end_conserved_hypothetical_protein_888726..888956_POSITIVE 272 129 81 216 142 aact:AA01450|5end_hypothetical_protein_971860..972090_POSITIVE 271 97 51 188 139 aact:AA00726|5end_apolipoprotein_N-acyltransferase,_copper_498265..498495_POSITIVE 270 98 51 172 119 aact:AA01513|5end_hydrogen_peroxide-inducible_activator_1018835..1019065_POSITIVE 266 104 67 179 134 aact:AA02910|5end_ribonuclease_E_2036137..2036367_POSITIVE 265 98 67 142 97 aact:AA00716|5end_conserved_hypothetical_protein_490973..491203_POSITIVE 264 118 77 206 165 aact:AA02371|5end_oxygen-independent_coproporphyrinogen_III_oxidase_1624580..1624810_POSITIVE 263 90 46 60 14 aact:AA02242|5end_molybdenum_cofactor_biosynthesis_protein_A_1523998..1524228_POSITIVE 262 89 41 153 98 aact:AA01418|5end_conserved_hypothetical_protein_953951..954181_POSITIVE 262 139 94 229 183 aact:AA01068|5end_hypothetical_protein_739669..739899_POSITIVE 261 89 42 135 87 aact:AA01098|5end_bis(5'-nucleosyl)-tetraphosphatase_757699..757929_POSITIVE 261 89 41 89 42 aact:AA00528|5end_conserved_hypothetical_protein_361396..361626_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 313 99 51 107 58 aact:AA00013|3end_hypothetical_protein_6891..7041_POSITIVE 289 130 81 150 107 aact:AA00581|3end_thiosulfate_sulfurtransferase_(rhodanese)_397966..398116_POSITIVE 287 120 78 140 102 aact:AA02666|3end_DNA_helicase_II_1856583..1856733_POSITIVE 281 100 51 129 76 aact:AA00992|3end_ribonuclease_BN_694568..694718_POSITIVE 272 87 41 135 76 aact:AA01841|3end_conserved_hypothetical_protein_1237863..1238013_POSITIVE 271 97 51 119 70 aact:AA00725|3end_translation_initiation_factor_1_498276..498426_POSITIVE 265 98 67 139 94 aact:AA00715|3end_[2Fe-2S]_ferredoxin_491050..491200_POSITIVE 262 89 41 150 95 aact:AA01417|3end_probable_4-diphosphocytidyl-2C-methyl-D-erthyritol_synthase_(MEP_cytidyltransferase)_(MCT)_954028..954178_POSITIVE 261 89 41 76 29 aact:AA00527|3end_ATP-dependent_DNA_helicase_361463..361613_POSITIVE 260 126 83 144 104 aact:AA01308|3end_cyclic_AMP_receptor_protein_888732..888882_POSITIVE 258 80 40 83 34 aact:AA02419|3end_hypothetical_protein_1661954..1662104_POSITIVE 258 87 51 92 51 aact:AA00160|3end_pilA-like_biogenesis_protein_/_prepilin_peptidase_dependent_proteinD_113434..113584_POSITIVE 257 103 63 52 10 aact:AA01389|3end_hypothetical_protein_937158..937308_POSITIVE 254 140 114 87 61 aact:AA01185|3end_conserved_hypothetical_protein_(possible_membrane_protein)_813401..813551_POSITIVE 252 102 68 151 108 aact:AA00041|3end_cytochrome_c-type_biogenesis_protein_33817..33967_POSITIVE 250 119 75 142 104 aact:AA01340|3end_possible_lipoprotein;_possible_HlyD_family_secretion_domain_protein;_possible_membrane_fusion_protein_907019..907169_POSITIVE 250 118 75 117 65 aact:AA00794|3end_phosphohydrolase_544800..544950_POSITIVE 249 128 82 134 76 aact:AA00165|3end_conserved_hypothetical_protein_117647..117797_POSITIVE 248 90 43 50 3 aact:AA02474|3end_transmembrane_protein_1711548..1711698_POSITIVE 248 117 72 39 2 aact:AA02451|3end_conserved_hypothetical_protein_1688926..1689076_POSITIVE