Origin IGS: ttttgctctcctatattattaatttgattaacttaaaatatgctaacttaagattttaatttaactaaaggcaaattgaaccgctttatttgggtaaattcagtcctttatttaaaataaaatgctaaagctttagtattatcctataaaaaaataaaaaatcaaattccgcttatttttcagatcaatataaccaactttcctttgttgctttttatatgaaatttta .........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 taaaatttcatataaaaagcaacaaaggaaagttggttatattgatctgaaaaataagcggaatttgattttttatttttttataggataatactaaagctttagcattttattttaaataaaggactgaatttacccaaataaagcggttcaatttgcctttagttaaattaaaatcttaagttagcatattttaagttaatcaaattaataatataggagagcaaaa Mask Tandem Repeat Region ================================================ ttttgctctcctatattattaatttgattaacttaaaatatgctaacttaagattttaatttaactaaaggcaaattgaaccgctttatttgggtaaattcagtcctttatttaaaataaaatgctaaagctttagtattatcctataaaaaaataaaaaatcaaattccgcttatttttcagatcaatataaccaactttcctttgttgctttttatatgaaatttta Find is-nt database================================================ Query_seq: AA02479:AA02480|AA02479:AA02480:outer membrane protein 34:excinuclease ABC subunit B:->->:1716342..1716570 229 ttttgctctcctatattattaatttgattaacttaaaatatgctaacttaagattttaatttaactaaaggcaaattgaaccgctttatttgggtaaattcagtcctttatttaaaataaaatgctaaagctttagtattatcctataaaaaaataaaaaatcaaattccgcttatttttcagatcaatataaccaactttcctttgttgctttttatatgaaatttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02479:AA02480|AA02479:AA02480:outer membrane protein 34:excinuclease ABC subunit B:->->:1716342..1716570 229 ttttgctctcctatattattaatttgattaacttaaaatatgctaacttaagattttaatttaactaaaggcaaattgaaccgctttatttgggtaaattcagtcctttatttaaaataaaatgctaaagctttagtattatcctataaaaaaataaaaaatcaaattccgcttatttttcagatcaatataaccaactttcctttgttgctttttatatgaaatttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02479:AA02480|AA02479:AA02480:outer membrane protein 34:excinuclease ABC subunit B:->->:1716342..1716570 229 ttttgctctcctatattattaatttgattaacttaaaatatgctaacttaagattttaatttaactaaaggcaaattgaaccgctttatttgggtaaattcagtcctttatttaaaataaaatgctaaagctttagtattatcctataaaaaaataaaaaatcaaattccgcttatttttcagatcaatataaccaactttcctttgttgctttttatatgaaatttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttttgctctcctatattattaatttgattaacttaaaatatgctaacttaagattttaatttaactaaaggcaaattgaaccgctttatttgggtaaattcagtcctttatttaaaataaaatgctaaagctttagtattatcctataaaaaaataaaaaatcaaattccgcttatttttcagatcaatataaccaactttcctttgttgctttttatatgaaatttta Predict ORF larger than 30AA ================================================ ttttgctctcctatattattaatttgattaacttaaaatatgctaacttaagattttaatttaactaaaggcaaattgaaccgctttatttgggtaaattcagtcctttatttaaaataaaatgctaaagctttagtattatcctataaaaaaataaaaaatcaaattccgcttatttttcagatcaatataaccaactttcctttgttgctttttatatgaaatttta 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================================================ ttttgctctcctatattattaatttgattaacttaaaatatgctaacttaagattttaatttaactaaaggcaaattgaaccgctttatttgggtaaattcagtcctttatttaaaataaaatgctaaagctttagtattatcctataaaaaaataaaaaatcaaattccgcttatttttcagatcaatataaccaactttcctttgttgctttttatatgaaatttta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA02479:AA02480|AA02479:AA02480:outer membrane protein 34:excinuclease ABC subunit B:->->:1716342..1716570 229 ttttgctctcctatattattaatttgattaacttaaaatatgctaacttaagattttaatttaactaaaggcaaattgaaccgctttatttgggtaaattcagtcctttatttaaaataaaatgctaaagctttagtattatcctataaaaaaataaaaaatcaaattccgcttatttttcagatcaatataaccaactttcctttgttgctttttatatgaaatttta Intra-Species Hit: Count: 1 Min: 1 Max: 229 Len: 229 Subject: aact_AA02479_AA02480|outer membrane protein 34:excinuclease ABC subunit B|POSITIVE:POSITIVE|[1716342,1716570]|229 HSP 1 e-value: 5.0E-78 bit: 291.0 Len: 147 Query Start:1 Query End:147 Subject Strand: POSITIVE Subject Start: 1 Subject End: 147 ttttgctctcctatattattaatttgattaacttaaaatatgctaacttaagattttaatttaactaaaggcaaattgaaccgctttatttgggtaaattcagtcctttatttaaaataaaatgctaaagctttagtattatcctat.................................................................................. ttttgctctcctatattattaatttgattaacttaaaatatgctaacttaagattttaatttaactaaaggcaaattgaaccgctttatttgggtaaattcagtcctttatttaaaataaaatgctaaagctttagtattatcctat.................................................................................. HSP 2 e-value: 7.0E-31 bit: 135.0 Len: 68 Query Start:162 Query End:229 Subject Strand: POSITIVE Subject Start: 162 Subject End: 229 .................................................................................................................................................................tcaaattccgcttatttttcagatcaatataaccaactttcctttgttgctttttatatgaaatttta .................................................................................................................................................................tcaaattccgcttatttttcagatcaatataaccaactttcctttgttgctttttatatgaaatttta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUUGCUCUCCUAUAUUAUUAAUUUGAUUAACUUAAAAUAUGCUAACUUAAGAUUUUAAUUUAACUAAAGGCAAAUUGAACCGCUUUAUUUGGGUAAAUUCAGUCCUUUAUUUAAAAUAAAAUGCUAAAGCUUUAGUAUUAUCCUAUAAAAAAAUAAAAAAUCAAAUUCCGCUUAUUUUUCAGAUCAAUAUAACCAACUUUCCUUUGUUGCUUUUUAUAUGAAAUUUUA ....................(((((((((..........((((((((((.((((((((.(((((.((((((...((((((..((((.....))))...)))))))))))).))))).)))))).)).)))..))))))).....(((......)))...)))))))))................(((.(((((.((((........))))....))))))))....... (-30.40) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAAUUUCAUAUAAAAAGCAACAAAGGAAAGUUGGUUAUAUUGAUCUGAAAAAUAAGCGGAAUUUGAUUUUUUAUUUUUUUAUAGGAUAAUACUAAAGCUUUAGCAUUUUAUUUUAAAUAAAGGACUGAAUUUACCCAAAUAAAGCGGUUCAAUUUGCCUUUAGUUAAAUUAAAAUCUUAAGUUAGCAUAUUUUAAGUUAAUCAAAUUAAUAAUAUAGGAGAGCAAAA .....((((.((((..((.((((........)))).)).(((((((.(((((((((.((.............(((((((.....)))))))......(((((.((.((((((.(((((.((((((...(((((.((((.......).)))..))))).)))))).))))).)))))))).))))).)).)))))).......))).))))))).)))).))))...... (-36.11) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 244 118 72 79 23 aact:AA02044|5end_phosphotransferase_system_enzyme_II,_galactitol_specific,_protein_A_1391488..1391718_POSITIVE 236 95 58 222 185 aact:AA01160|5end_ADP_compounds_hydrolase_793565..793795_POSITIVE 235 108 70 141 107 aact:AA01876|5end_PTS_system,_IIBC_components_1263365..1263595_POSITIVE 234 110 67 104 49 aact:AA01642|5end_possible_iron(III)_ABC_transporter_1110970..1111200_POSITIVE 233 109 70 150 112 aact:AA00170|5end_hypothetical_protein_121238..121468_POSITIVE 228 105 64 131 90 aact:AA00602|5end_1-deoxy-D-xylulose_5-phosphate_reductoisomerase_409077..409307_POSITIVE 225 110 70 135 85 aact:AA02513|5end_seqA_protein_1746800..1747030_POSITIVE 216 214 171 229 186 aact:AA01729|5end_hypothetical_protein_1168585..1168815_POSITIVE 215 107 66 132 92 aact:AA01183|5end_conserved_hypothetical_protein_810442..810672_POSITIVE 213 85 44 172 130 aact:AA01998|5end_16S_rRNA_pseudouridine_synthase_1356842..1357072_POSITIVE 212 103 68 193 160 aact:AA02313|5end_conserved_hypothetical_protein_1580156..1580386_POSITIVE 212 109 70 214 167 aact:AA00759|5end_3-oxoacyl-[acyl-carrier-protein]_synthase_I_520603..520833_POSITIVE 212 109 70 96 49 aact:AA00758|5end_hypothetical_protein_520485..520715_POSITIVE 211 144 105 114 75 aact:AA01169|5end_hypothetical_protein_801985..802215_POSITIVE 210 125 81 45 1 aact:AA02814|5end_hypothetical_protein_1980180..1980410_POSITIVE 210 88 42 110 68 aact:AA01943|5end_conserved_hypothetical_protein_1312850..1313080_POSITIVE 210 210 164 156 115 aact:AA01933|5end_hypothetical_protein_1306060..1306290_POSITIVE 210 95 70 84 50 aact:AA00146|5end_UDP-glucose/GDP-mannose_dehydrogenase_105256..105486_POSITIVE 208 105 81 164 140 aact:AA01957|5end_conserved_hypothetical_protein_1323211..1323441_POSITIVE 206 46 1 56 15 aact:AA00438|5end_probable_chromosomal_partitioning_protein_(ParB-like_family)_302991..303221_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 244 118 72 98 42 aact:AA02043|3end_tagatose_6-phosphate_kinase_1391587..1391737_POSITIVE 234 110 67 90 35 aact:AA01641|3end_hypothetical_protein_1111036..1111186_POSITIVE 228 105 64 93 52 aact:AA00601|3end_hypothetical_protein_409119..409269_POSITIVE 226 110 68 51 4 aact:AA01263|3end_hypothetical_protein_861086..861236_POSITIVE 225 110 70 126 76 aact:AA02512|3end_O-succinylbenzoate--CoA_ligase_1746871..1747021_POSITIVE 218 120 80 81 38 aact:AA02813|3end_hypothetical_protein_1980298..1980448_POSITIVE 218 34 4 149 119 aact:AA00020|3end_conserved_hypothetical_protein_14486..14636_POSITIVE 215 107 66 120 80 aact:AA01182|3end_3-oxoacyl-(acyl-carrier-protein)_synthase_810510..810660_POSITIVE 213 85 44 114 72 aact:AA01997|3end_probable_translation_factor_1356864..1357014_POSITIVE 212 109 70 70 23 aact:AA00757|3end_aerobic_respiration_sensor-response_protein_520539..520689_POSITIVE 211 144 105 67 28 aact:AA01168|3end_6-phosphogluconolactonase_802018..802168_POSITIVE 210 88 42 133 91 aact:AA01942|3end_hypothetical_protein_1312953..1313103_POSITIVE 210 210 164 108 67 aact:AA01932|3end_tRNA_pseudouridine_synthase_B_1306092..1306242_POSITIVE 210 95 70 92 58 aact:AA00145|3end_probable_degenerate_transposase_fragment_105344..105494_POSITIVE 206 46 1 60 19 aact:AA00437|3end_conserved_hypothetical_protein;_possible_parB-like_nuclease_303075..303225_POSITIVE 203 107 64 149 119 aact:AA00892|3end_selenocysteine-specific_elongation_factor_(SelB_translation_factor)_619959..620109_POSITIVE 203 106 69 147 114 aact:AA00276|3end_dethiobiotin_synthase_193950..194100_POSITIVE 201 195 169 151 121 aact:AA02348|3end_bacterioferritin_comigratory_protein_1607313..1607463_POSITIVE 201 90 42 131 97 aact:AA01585|3end_tRNA_delta(2)-isopentenylpyrophosphate_1067073..1067223_POSITIVE 199 114 75 90 48 aact:AA00355|3end_DNA-directed_RNA_polymerase_beta_chain_(transcriptase_beta_chain)_238911..239061_POSITIVE