Origin IGS: gatatgtacttcttagtaatgaaaaaaacgggcatagcatactgtttttggacaagaggctcaaatgtttgttttacacctccgcattgctaattcagtgtgacaatagaataatgatttcgttctaaaaccactcaattcagaaagtgaggtcgttacgattttcatacttaacaaaattaatcgcaaattaaccgcactttttcatatcatggatta .........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 taatccatgatatgaaaaagtgcggttaatttgcgattaattttgttaagtatgaaaatcgtaacgacctcactttctgaattgagtggttttagaacgaaatcattattctattgtcacactgaattagcaatgcggaggtgtaaaacaaacatttgagcctcttgtccaaaaacagtatgctatgcccgtttttttcattactaagaagtacatatc Mask Tandem Repeat Region ================================================ gatatgtacttcttagtaatgaaaaaaacgggcatagcatactgtttttggacaagaggctcaaatgtttgttttacacctccgcattgctaattcagtgtgacaatagaataatgatttcgttctaaaaccactcaattcagaaagtgaggtcgttacgattttcatacttaacaaaattaatcgcaaattaaccgcactttttcatatcatggatta Find is-nt database================================================ Query_seq: AA00939:AA00940|AA00939:AA00940:transcription accessory protein (toxin expression):probable transcriptional regulator (LysR family):->->:650785..651003 219 gatatgtacttcttagtaatgaaaaaaacgggcatagcatactgtttttggacaagaggctcaaatgtttgttttacacctccgcattgctaattcagtgtgacaatagaataatgatttcgttctaaaaccactcaattcagaaagtgaggtcgttacgattttcatacttaacaaaattaatcgcaaattaaccgcactttttcatatcatggatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00939:AA00940|AA00939:AA00940:transcription accessory protein (toxin expression):probable transcriptional regulator (LysR family):->->:650785..651003 219 gatatgtacttcttagtaatgaaaaaaacgggcatagcatactgtttttggacaagaggctcaaatgtttgttttacacctccgcattgctaattcagtgtgacaatagaataatgatttcgttctaaaaccactcaattcagaaagtgaggtcgttacgattttcatacttaacaaaattaatcgcaaattaaccgcactttttcatatcatggatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00939:AA00940|AA00939:AA00940:transcription accessory protein (toxin expression):probable transcriptional regulator (LysR family):->->:650785..651003 219 gatatgtacttcttagtaatgaaaaaaacgggcatagcatactgtttttggacaagaggctcaaatgtttgttttacacctccgcattgctaattcagtgtgacaatagaataatgatttcgttctaaaaccactcaattcagaaagtgaggtcgttacgattttcatacttaacaaaattaatcgcaaattaaccgcactttttcatatcatggatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gatatgtacttcttagtaatgaaaaaaacgggcatagcatactgtttttggacaagaggctcaaatgtttgttttacacctccgcattgctaattcagtgtgacaatagaataatgatttcgttctaaaaccactcaattcagaaagtgaggtcgttacgattttcatacttaacaaaattaatcgcaaattaaccgcactttttcatatcatggatta Predict ORF larger than 30AA ================================================ Protein_Len: 42 Strand: - Start: 64 End: 189 ............................................................... I N T K C R R M A L E T H C Y F L S K T R F G S L E S L S T T V I K M S L L I L R M .............................. gatatgtacttcttagtaatgaaaaaaacgggcatagcatactgtttttggacaagaggctcaaatgtttgttttacacctccgcattgctaattcagtgtgacaatagaataatgatttcgttctaaaaccactcaattcagaaagtgaggtcgttacgattttcatacttaacaaaattaatcgcaaattaaccgcactttttcatatcatggatta 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: 82 Start: 86 End: 115 .....................................................................................ATTGCTAATTCAGTGTGACAATAGAATAAT........................................................................................................ Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ gatatgtacttcttagtaatgaaaaaaacgggcatagcatactgtttttggacaagaggctcaaatgtttgttttacacctccgcattgctaattcagtgtgacaatagaataatgatttcgttctaaaaccactcaattcagaaagtgaggtcgttacgattttcatacttaacaaaattaatcgcaaattaaccgcactttttcatatcatggatta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA00939:AA00940|AA00939:AA00940:transcription accessory protein (toxin expression):probable transcriptional regulator (LysR family):->->:650785..651003 219 gatatgtacttcttagtaatgaaaaaaacgggcatagcatactgtttttggacaagaggctcaaatgtttgttttacacctccgcattgctaattcagtgtgacaatagaataatgatttcgttctaaaaccactcaattcagaaagtgaggtcgttacgattttcatacttaacaaaattaatcgcaaattaaccgcactttttcatatcatggatta Intra-Species Hit: Count: 1 Min: 1 Max: 219 Len: 219 Subject: aact_AA00939_AA00940|transcription accessory protein (toxin expression):probable transcriptional regulator (LysR family)|POSITIVE:POSITIVE|[650785,651003]|219 HSP 1 e-value: 1.0E-108 bit: 392.0 Len: 219 Query Start:1 Query End:219 Subject Strand: POSITIVE Subject Start: 1 Subject End: 219 gatatgtacttcttagtaatgnnnnnnncgggcatagcatactgtttttggacaagaggctcaaatgtttgttttacacctccgcattgctaattcagtgtgacaatagaataatgatttcgttctaaaaccactcaattcagaaagtgaggtcgttacgattttcatacttaacaaaattaatcgcaaattaaccgcactttttcatatcatggatta gatatgtacttcttagtaatgaaaaaaacgggcatagcatactgtttttggacaagaggctcaaatgtttgttttacacctccgcattgctaattcagtgtgacaatagaataatgatttcgttctaaaaccactcaattcagaaagtgaggtcgttacgattttcatacttaacaaaattaatcgcaaattaaccgcactttttcatatcatggatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAUAUGUACUUCUUAGUAAUGAAAAAAACGGGCAUAGCAUACUGUUUUUGGACAAGAGGCUCAAAUGUUUGUUUUACACCUCCGCAUUGCUAAUUCAGUGUGACAAUAGAAUAAUGAUUUCGUUCUAAAACCACUCAAUUCAGAAAGUGAGGUCGUUACGAUUUUCAUACUUAACAAAAUUAAUCGCAAAUUAACCGCACUUUUUCAUAUCAUGGAUUA ((((((......((((.(((((((((((((((((((((....((((....))))....)))...))))))))))).......(((((((......)))))))...............))))))))))).............((((((((.(((..((.(((((..................))))).))....))).))))))))))))))........ (-44.37) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUCCAUGAUAUGAAAAAGUGCGGUUAAUUUGCGAUUAAUUUUGUUAAGUAUGAAAAUCGUAACGACCUCACUUUCUGAAUUGAGUGGUUUUAGAACGAAAUCAUUAUUCUAUUGUCACACUGAAUUAGCAAUGCGGAGGUGUAAAACAAACAUUUGAGCCUCUUGUCCAAAAACAGUAUGCUAUGCCCGUUUUUUUCAUUACUAAGAAGUACAUAUC ........((((((..((((((.((((...((((((((...((..(.....)..)))))))))).)))).))))))..((((..(((((((((.....))))))))))))).........(((...((((.((((.((((((.((((.......)))).)))))).....((((((.((((...))))..))))))..)))).))))..))).)))))) (-43.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 304 90 46 123 78 aact:AA01291|5end_excinuclease_ABC_subunit_A_872829..873059_POSITIVE 284 128 82 198 150 aact:AA01141|5end_conserved_hypothetical_protein_(possible_component_of_anaerobic_dehydrogenase/oxidoreductase)_782497..782727_POSITIVE 260 90 43 198 144 aact:AA02371|5end_oxygen-independent_coproporphyrinogen_III_oxidase_1624580..1624810_POSITIVE 260 167 128 72 30 aact:AA00899|5end_possible_quaternary_ammonium_compound_resistance_protein_623214..623444_POSITIVE 258 66 28 40 8 aact:AA02640|5end_rhamnosyltrasferase_1838389..1838619_POSITIVE 258 120 79 82 34 aact:AA00309|5end_3-hydroxyisobutyrate_dehydrogenase;_2-hydroxy-3-oxopropionate_reductase_209285..209515_POSITIVE 256 90 41 171 118 aact:AA02270|5end_endopeptidase_La;_lon_protease;_protease_La_homolog;_ATP-dependent_protease_LA_(lon-1)_1546870..1547100_POSITIVE 256 187 147 99 63 aact:AA00310|5end_conserved_hypothetical_protein_210193..210423_POSITIVE 254 90 42 161 105 aact:AA02903|5end_conserved_hypothetical_protein_(ribosomal_protein_L36)_2032140..2032370_POSITIVE 254 111 77 63 28 aact:AA02334|5end_outer_membrane_protein_P1_1595307..1595537_POSITIVE 251 161 128 181 143 aact:AA01947|5end_iron(III)-transport_ATP-binding_protein_1316390..1316620_POSITIVE 250 207 185 64 39 aact:AA00570|5end_hypothetical_protein_391613..391843_POSITIVE 248 70 29 75 33 aact:AA01861|5end_phosphomethylpyrimidine_kinase_1251806..1252036_POSITIVE 248 54 28 116 85 aact:AA01193|5end_AMP-binding_enzyme_817928..818158_POSITIVE 248 205 173 152 119 aact:AA00324|5end_tRNA_(Uracil-5-)-methyltransferase_(tRNA(M-5-U54)-methyltransferase)_220147..220377_POSITIVE 247 204 184 140 118 aact:AA01694|5end_PTS_system,_IIA_component_1149929..1150159_POSITIVE 246 89 42 93 50 aact:AA00428|5end_hypothetical_protein_289856..290086_POSITIVE 244 157 114 157 108 aact:AA02509|5end_chorismate_synthase_1740952..1741182_POSITIVE 243 60 15 230 164 aact:AA01879|5end_glutamyl-tRNA_reductase_1265717..1265947_POSITIVE 243 66 21 197 152 aact:AA00419|5end_conserved_hypothetical_protein_(possible_phosphatidylethanolamine-binding_protein)_284337..284567_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 304 90 46 62 17 aact:AA01289|3end_hypothetical_protein_872848..872998_POSITIVE 284 128 82 147 99 aact:AA01140|3end_anaerobic_dimethyl_sulfoxide_reductase,_chain_C_782526..782676_POSITIVE 268 206 174 123 90 aact:AA02184|3end_anthranilate_isomerase;_indole-3-glycerol_phosphate_synthase;_phosphoribosylanthranilate_isomerase_1492541..1492691_POSITIVE 265 68 30 77 38 aact:AA00371|3end_transcriptional_regulator_250154..250304_POSITIVE 260 102 64 111 64 aact:AA00167|3end_possible_amino-acid_transporter_(sodium-alanine_symporters)_119689..119839_POSITIVE 258 66 28 37 5 aact:AA02639|3end_conserved_hypothetical_protein_1838466..1838616_POSITIVE 256 187 147 93 57 aact:AA00309|3end_3-hydroxyisobutyrate_dehydrogenase;_2-hydroxy-3-oxopropionate_reductase_210267..210417_POSITIVE 255 90 48 64 17 aact:AA01167|3end_glucose-6-phosphate_1-dehydrogenase_801067..801217_POSITIVE 252 169 121 148 98 aact:AA01922|3end_translation_initiation_factor_IF2_1297279..1297429_POSITIVE 249 210 175 88 46 aact:AA01351|3end_probable_sulfatase_916393..916543_POSITIVE 248 70 29 79 37 aact:AA01859|3end_hypothetical_protein_1251890..1252040_POSITIVE 248 54 28 85 54 aact:AA01192|3end_conserved_hypothetical_protein_(possible_membrane_protein)_817977..818127_POSITIVE 248 205 173 147 114 aact:AA00323|3end_conserved_hypothetical_protein_(possible_SAM-dependent_methyltransferase)_220222..220372_POSITIVE 247 204 184 60 38 aact:AA01692|3end_hexulose-6-phosphate_synthase_1149929..1150079_POSITIVE 246 89 42 113 70 aact:AA00427|3end_hypothetical_protein_289956..290106_POSITIVE 244 157 114 132 83 aact:AA02507|3end_penicillin-insensitive_murein_endopeptidase_A_1741007..1741157_POSITIVE 243 66 21 88 43 aact:AA00417|3end_outer_membrane_lipoprotein_precursor_(probable_D-methionine-binding_lipoprotein)_284308..284458_POSITIVE 237 63 30 66 20 aact:AA01582|3end_hypothetical_protein_1065651..1065801_POSITIVE 236 88 49 111 70 aact:AA00551|3end_hypothetical_protein_377403..377553_POSITIVE 235 90 48 118 66 aact:AA02543|3end_conserved_hypothetical_protein_1773434..1773584_POSITIVE