Origin IGS: tgattttgatcatgtttttgtcagtttttgggatgctcggttatcttttgtgatcgatttcaaattctttgactcaccataaatggttaaatgatcactccttgatattactagtaatgtgtatgagggggatagtt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aactatccccctcatacacattactagtaatatcaaggagtgatcatttaaccatttatggtgagtcaaagaatttgaaatcgatcacaaaagataaccgagcatcccaaaaactgacaaaaacatgatcaaaatca Mask Tandem Repeat Region ================================================ tgattttgatcatgtttttgtcagtttttgggatgctcggttatcttttgtgatcgatttcaaattctttgactcaccataaatggttaaatgatcactccttgatattactagtaatgtgtatgagggggatagtt Find is-nt database================================================ Query_seq: AA01136:AA01137|AA01136:AA01137:hypothetical protein:anaerobic dimethyl sulfoxide reductase, chain A:->->:778563..778699 137 tgattttgatcatgtttttgtcagtttttgggatgctcggttatcttttgtgatcgatttcaaattctttgactcaccataaatggttaaatgatcactccttgatattactagtaatgtgtatgagggggatagtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA01136:AA01137|AA01136:AA01137:hypothetical protein:anaerobic dimethyl sulfoxide reductase, chain A:->->:778563..778699 137 tgattttgatcatgtttttgtcagtttttgggatgctcggttatcttttgtgatcgatttcaaattctttgactcaccataaatggttaaatgatcactccttgatattactagtaatgtgtatgagggggatagtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA01136:AA01137|AA01136:AA01137:hypothetical protein:anaerobic dimethyl sulfoxide reductase, chain A:->->:778563..778699 137 tgattttgatcatgtttttgtcagtttttgggatgctcggttatcttttgtgatcgatttcaaattctttgactcaccataaatggttaaatgatcactccttgatattactagtaatgtgtatgagggggatagtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgattttgatcatgtttttgtcagtttttgggatgctcggttatcttttgtgatcgatttcaaattctttgactcaccataaatggttaaatgatcactccttgatattactagtaatgtgtatgagggggatagtt Predict ORF larger than 30AA ================================================ Protein_Len: 32 Strand: - Start: 13 End: 108 ............ T K T L K Q S A R N D K T I S K L N K S E G Y I T L H D S R S M ............................. tgattttgatcatgtttttgtcagtttttgggatgctcggttatcttttgtgatcgatttcaaattctttgactcaccataaatggttaaatgatcactccttgatattactagtaatgtgtatgagggggatagtt 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================================================ tgattttgatcatgtttttgtcagtttttgggatgctcggttatcttttgtgatcgatttcaaattctttgactcaccataaatggttaaatgatcactccttgatattactagtaatgtgtatgagggggatagtt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA01136:AA01137|AA01136:AA01137:hypothetical protein:anaerobic dimethyl sulfoxide reductase, chain A:->->:778563..778699 137 tgattttgatcatgtttttgtcagtttttgggatgctcggttatcttttgtgatcgatttcaaattctttgactcaccataaatggttaaatgatcactccttgatattactagtaatgtgtatgagggggatagtt Intra-Species Hit: Count: 1 Min: 1 Max: 137 Len: 137 Subject: aact_AA01136_AA01137|hypothetical protein:anaerobic dimethyl sulfoxide reductase, chain A|POSITIVE:POSITIVE|[778563,778699]|137 HSP 1 e-value: 3.0E-72 bit: 272.0 Len: 137 Query Start:1 Query End:137 Subject Strand: POSITIVE Subject Start: 1 Subject End: 137 tgattttgatcatgtttttgtcagtttttgggatgctcggttatcttttgtgatcgatttcaaattctttgactcaccataaatggttaaatgatcactccttgatattactagtaatgtgtatgagggggatagtt tgattttgatcatgtttttgtcagtttttgggatgctcggttatcttttgtgatcgatttcaaattctttgactcaccataaatggttaaatgatcactccttgatattactagtaatgtgtatgagggggatagtt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAUUUUGAUCAUGUUUUUGUCAGUUUUUGGGAUGCUCGGUUAUCUUUUGUGAUCGAUUUCAAAUUCUUUGACUCACCAUAAAUGGUUAAAUGAUCACUCCUUGAUAUUACUAGUAAUGUGUAUGAGGGGGAUAGUU ......(((((((......(((((..((((..(...((((((((.....)))))))))..))))....)))))..((((....))))...)))))))((((((.((((.((.......)))))).))))))...... (-33.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AACUAUCCCCCUCAUACACAUUACUAGUAAUAUCAAGGAGUGAUCAUUUAACCAUUUAUGGUGAGUCAAAGAAUUUGAAAUCGAUCACAAAAGAUAACCGAGCAUCCCAAAAACUGACAAAAACAUGAUCAAAAUCA .....................................((.(((((((...((((....))))..((((........((..((((((......)))...)))...))........))))......)))))))...)). (-16.89) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 286 57 13 120 86 aact:AA02898|5end_oligopeptide_transport_ATP-binding_protein_2029083..2029313_POSITIVE 281 50 2 180 129 aact:AA01905|5end_hypothetical_protein_1285306..1285536_POSITIVE 280 56 11 65 22 aact:AA02802|5end_probable_myo-inositol_2-dehydrogenase_1968999..1969229_POSITIVE 266 54 13 154 106 aact:AA02903|5end_conserved_hypothetical_protein_(ribosomal_protein_L36)_2032140..2032370_POSITIVE 262 60 12 66 25 aact:AA01149|5end_glycyl-tRNA_synthetase_beta_subunit_786027..786257_POSITIVE 257 74 38 231 191 aact:AA00878|5end_tight_adherence_protein_E_609392..609622_POSITIVE 250 53 11 81 37 aact:AA01741|5end_6-pyruvoyl_tetrahydrobiopterin_synthase_1177193..1177423_POSITIVE 250 44 14 227 193 aact:AA00566|5end_30S_ribosomal_protein_S12_(streptomycin_resistance_protein)_390595..390825_POSITIVE 247 60 19 63 24 aact:AA01176|5end_hypothetical_protein_806309..806539_POSITIVE 245 50 1 226 173 aact:AA01506|5end_protein-export_protein_1011905..1012135_POSITIVE 244 61 23 230 202 aact:AA01018|5end_conserved_hypothetical_protein_(possible_transcriptional_regulator)_711663..711893_POSITIVE 243 58 11 76 17 aact:AA00722|5end_nucleoside_diphosphate_kinase_496020..496250_POSITIVE 238 66 23 49 14 aact:AA00805|5end_fumarate_reductase_iron-sulfur_protein_551583..551813_POSITIVE 235 50 3 210 154 aact:AA01455|5end_D-xylose_ABC_transporter,_periplasmic-binding_protein_975031..975261_POSITIVE 234 130 91 130 90 aact:AA02286|5end_sugar_ABC_transporter,_ATP-binding_protein_1557578..1557808_POSITIVE 234 45 1 219 180 aact:AA01673|5end_riboflavin_synthase,_alpha_chain_1131477..1131707_POSITIVE 231 56 17 107 57 aact:AA01216|5end_conserved_hypothetical_protein_831820..832050_POSITIVE 230 56 11 100 41 aact:AA02081|5end_periplasmic_protein_1414698..1414928_POSITIVE 229 59 19 135 98 aact:AA02115|5end_hypothetical_protein_1444528..1444758_POSITIVE 228 62 27 48 10 aact:AA00039|5end_cytochrome_c-type_biogenesis_protein_30312..30542_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 286 57 13 107 73 aact:AA02897|3end_oligopeptide_ABC_transporter;_permease_protein_2029150..2029300_POSITIVE 280 56 11 59 16 aact:AA02801|3end_myo-inositol_catabolism_protein_1969073..1969223_POSITIVE 250 53 11 51 7 aact:AA01740|3end_conserved_hypothetical_protein_1177243..1177393_POSITIVE 250 44 14 71 37 aact:AA00565|3end_30S_ribosomal_protein_S7_390519..390669_POSITIVE 247 60 19 69 30 aact:AA01175|3end_6-phosphogluconate_dehydrogenase_806395..806545_POSITIVE 245 50 1 145 92 aact:AA01503|3end_glycerol-3-phosphate_dehydrogenase_1011904..1012054_POSITIVE 238 66 23 41 6 aact:AA00804|3end_fumarate_reductase_flavoprotein_subunit_A_551655..551805_POSITIVE 231 58 13 144 97 aact:AA00316|3end_conserved_hypothetical_protein_215340..215490_POSITIVE 230 56 11 116 57 aact:AA02080|3end_ABC_transporter,_ATP-binding/permease_1414794..1414944_POSITIVE 229 74 37 117 82 aact:AA02876|3end_conserved_hypothetical_protein_2018753..2018903_POSITIVE 229 59 19 97 60 aact:AA02114|3end_exodeoxyribonuclease_I_1444570..1444720_POSITIVE 228 62 27 48 10 aact:AA00038|3end_conserved_hypothetical_protein_30392..30542_POSITIVE 225 114 76 147 107 aact:AA01235.1|3end_50S_ribosomal_protein_L30_842535..842685_POSITIVE 224 122 83 46 4 aact:AA01902|3end_conserved_hypothetical_protein_1283616..1283766_POSITIVE 221 61 22 52 11 aact:AA00992|3end_ribonuclease_BN_694568..694718_POSITIVE 221 46 1 82 30 aact:AA00340|3end_NADP(H)_oxidoreductase_(NAD(P)H_dehydrogenase_(quinone))_229425..229575_POSITIVE 220 125 94 30 1 aact:AA00872|3end_rough_colony_protein_B_604520..604670_POSITIVE 220 64 28 64 31 aact:AA00194|3end_oxygen-independent_coproporphyrinogen_III_oxidase_136989..137139_POSITIVE 218 78 31 145 85 aact:AA01830|3end_2,3-cyclic-nucleotide_2-phosphodiesterase_1233609..1233759_POSITIVE 218 76 35 110 59 aact:AA01650|3end_maltose_transport_inner_membrane_protein_1119849..1119999_POSITIVE