Origin IGS: ccaaagaattaaattttttaccatatcgttcaaggcattacctcgtatttataagttaacaacgtgttgtaaggttactatatttatctcaaaaattaaagttatcaaatcaattgagcttattggtaacttaatttgatta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taatcaaattaagttaccaataagctcaattgatttgataactttaatttttgagataaatatagtaaccttacaacacgttgttaacttataaatacgaggtaatgccttgaacgatatggtaaaaaatttaattctttgg Mask Tandem Repeat Region ================================================ ccaaagaattaaattttttaccatatcgttcaaggcattacctcgtatttataagttaacaacgtgttgtaaggttactatatttatctcaaaaattaaagttatcaaatcaattgagcttattggtaacttaatttgatta Find is-nt database================================================ Query_seq: AA02289:AA02290|AA02289:AA02290:cell division protein H, a metalloprotease:cell division protein J; ribosomal RNA large subunit methyltransferase J:->->:1561280..1561421 142 ccaaagaattaaattttttaccatatcgttcaaggcattacctcgtatttataagttaacaacgtgttgtaaggttactatatttatctcaaaaattaaagttatcaaatcaattgagcttattggtaacttaatttgatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02289:AA02290|AA02289:AA02290:cell division protein H, a metalloprotease:cell division protein J; ribosomal RNA large subunit methyltransferase J:->->:1561280..1561421 142 ccaaagaattaaattttttaccatatcgttcaaggcattacctcgtatttataagttaacaacgtgttgtaaggttactatatttatctcaaaaattaaagttatcaaatcaattgagcttattggtaacttaatttgatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02289:AA02290|AA02289:AA02290:cell division protein H, a metalloprotease:cell division protein J; ribosomal RNA large subunit methyltransferase J:->->:1561280..1561421 142 ccaaagaattaaattttttaccatatcgttcaaggcattacctcgtatttataagttaacaacgtgttgtaaggttactatatttatctcaaaaattaaagttatcaaatcaattgagcttattggtaacttaatttgatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ccaaagaattaaattttttaccatatcgttcaaggcattacctcgtatttataagttaacaacgtgttgtaaggttactatatttatctcaaaaattaaagttatcaaatcaattgagcttattggtaacttaatttgatta Predict ORF larger than 30AA ================================================ Protein_Len: 43 Strand: + Start: 8 End: 136 ....... M K F F T I S F K A L P R I Y K L T T C C K V T I F I S K I K V I K S I E L I G N L I ...... ccaaagaattaaattttttaccatatcgttcaaggcattacctcgtatttataagttaacaacgtgttgtaaggttactatatttatctcaaaaattaaagttatcaaatcaattgagcttattggtaacttaatttgatta 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================================================ ccaaagaattaaattttttaccatatcgttcaaggcattacctcgtatttataagttaacaacgtgttgtaaggttactatatttatctcaaaaattaaagttatcaaatcaattgagcttattggtaacttaatttgatta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA02289:AA02290|AA02289:AA02290:cell division protein H, a metalloprotease:cell division protein J; ribosomal RNA large subunit methyltransferase J:->->:1561280..1561421 142 ccaaagaattaaattttttaccatatcgttcaaggcattacctcgtatttataagttaacaacgtgttgtaaggttactatatttatctcaaaaattaaagttatcaaatcaattgagcttattggtaacttaatttgatta Intra-Species Hit: Count: 1 Min: 1 Max: 142 Len: 142 Subject: aact_AA02289_AA02290|cell division protein H, a metalloprotease:cell division protein J; ribosomal RNA large subunit methyltransferase J|POSITIVE:POSITIVE|[1561280,1561421]|142 HSP 1 e-value: 3.0E-75 bit: 281.0 Len: 142 Query Start:1 Query End:142 Subject Strand: POSITIVE Subject Start: 1 Subject End: 142 ccaaagaattaaattttttaccatatcgttcaaggcattacctcgtatttataagttaacaacgtgttgtaaggttactatatttatctcaaaaattaaagttatcaaatcaattgagcttattggtaacttaatttgatta ccaaagaattaaattttttaccatatcgttcaaggcattacctcgtatttataagttaacaacgtgttgtaaggttactatatttatctcaaaaattaaagttatcaaatcaattgagcttattggtaacttaatttgatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CCAAAGAAUUAAAUUUUUUACCAUAUCGUUCAAGGCAUUACCUCGUAUUUAUAAGUUAACAACGUGUUGUAAGGUUACUAUAUUUAUCUCAAAAAUUAAAGUUAUCAAAUCAAUUGAGCUUAUUGGUAACUUAAUUUGAUUA ......(((((((((..((((((....((((((.........................((((....))))..(((.(((..((((.......))))...))).))).......))))))....))))))...))))))))). (-21.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUCAAAUUAAGUUACCAAUAAGCUCAAUUGAUUUGAUAACUUUAAUUUUUGAGAUAAAUAUAGUAACCUUACAACACGUUGUUAACUUAUAAAUACGAGGUAAUGCCUUGAACGAUAUGGUAAAAAAUUUAAUUCUUUGG ..((((...(((((((.((((...(((((.....((((.....))))...))))).........(((....))).....)))).)))))))......(((((.....))))).......))))................... (-20.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 286 79 31 173 114 aact:AA02141|5end_ABC_transporter,_permease_protein_1464890..1465120_POSITIVE 264 66 21 187 123 aact:AA00576|5end_conserved_hypothetical_protein_(possible_translation_factor)_394020..394250_POSITIVE 244 68 21 80 32 aact:AA02075|5end_conserved_hypothetical_protein_1409654..1409884_POSITIVE 242 46 9 219 179 aact:AA01357|5end_5-formyltetrahydrofolate_cyclo-ligase-family_protein_919133..919363_POSITIVE 236 58 23 113 78 aact:AA01854|5end_conserved_hypothetical_protein_1246662..1246892_POSITIVE 227 65 21 105 64 aact:AA01774|5end_5,10-methylenetetrahydrofolate_reductase_1195015..1195245_POSITIVE 220 70 38 33 1 aact:AA01331|5end_50S_ribosomal_protein_L31_898408..898638_POSITIVE 215 45 21 139 117 aact:AA02199|5end_hypothetical_protein_1497627..1497857_POSITIVE 214 50 21 163 131 aact:AA01941|5end_hypothetical_protein_1312480..1312710_POSITIVE 211 68 25 64 24 aact:AA00892|5end_selenocysteine-specific_elongation_factor_(SelB_translation_factor)_618023..618253_POSITIVE 211 64 21 66 23 aact:AA00632|5end_inner_membrane_protein_ImpA_434127..434357_POSITIVE 206 69 23 222 168 aact:AA00673|5end_hypothetical_protein_460964..461194_POSITIVE 204 76 32 57 16 aact:AA00775|5end_conserved_hypothetical_protein_(possible_acyl_CoA_thioester_hydrolase)_533023..533253_POSITIVE 200 75 36 130 92 aact:AA00205|5end_ribose_ABC_transporter_protein_/_high_affinity_D-ribose_transport_protein_142162..142392_POSITIVE 199 78 34 104 58 aact:AA01409|5end_lipoprotein_B_950397..950627_POSITIVE 198 69 31 191 148 aact:AA01610|5end_hypothetical_protein_1088811..1089041_POSITIVE 194 68 27 75 35 aact:AA00565|5end_30S_ribosomal_protein_S7_389972..390202_POSITIVE 193 76 31 81 38 aact:AA01937|5end_sugar_fermentation_stimulation_protein_1308478..1308708_POSITIVE 192 77 34 172 122 aact:AA02628|5end_exodeoxyribonuclease_III_1829125..1829355_POSITIVE 192 47 25 109 83 aact:AA00602|5end_1-deoxy-D-xylulose_5-phosphate_reductoisomerase_409077..409307_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 231 69 26 116 82 aact:AA01729|3end_hypothetical_protein_1169027..1169177_POSITIVE 227 65 21 122 81 aact:AA01773|3end_hypothetical_protein_1195112..1195262_POSITIVE 221 47 20 140 113 aact:AA00575|3end_shikimate_5-dehydrogenase_394093..394243_POSITIVE 215 45 21 124 102 aact:AA02196|3end_oxaloacetate_decarboxylase_beta_chain_1497692..1497842_POSITIVE 214 50 21 143 111 aact:AA01939|3end_NAD(P)_transhydrogenase_subunit_beta_1312540..1312690_POSITIVE 204 76 32 50 9 aact:AA00774|3end_intracellular_septation_protein_533096..533246_POSITIVE 199 78 34 86 40 aact:AA01408|3end_conserved_hypothetical_protein_950459..950609_POSITIVE 198 76 33 79 33 aact:AA02340|3end_hypothetical_protein_1599341..1599491_POSITIVE 198 76 33 87 41 aact:AA02115|3end_hypothetical_protein_1444991..1445141_POSITIVE 198 69 31 122 79 aact:AA01609|3end_p-aminobenzoate_synthase_component_I_homolog_1088822..1088972_POSITIVE 198 76 33 87 41 aact:AA01075|3end_hypothetical_protein_746068..746218_POSITIVE 198 76 33 87 41 aact:AA00008|3end_hypothetical_protein_(possible_transposase_fragment)_5495..5645_POSITIVE 192 47 25 71 45 aact:AA00601|3end_hypothetical_protein_409119..409269_POSITIVE 189 45 21 151 120 aact:AA00531|3end_DNA_polymerase_I_365385..365535_POSITIVE 189 57 25 147 119 aact:AA00470|3end_conserved_hypothetical_protein_(possible_Zn-dependent_protease_with_chaperone_function)_327659..327809_POSITIVE 188 47 7 56 12 aact:AA01357|3end_5-formyltetrahydrofolate_cyclo-ligase-family_protein_919785..919935_POSITIVE 187 66 21 102 43 aact:AA00583|3end_GlpG_protein_399210..399360_POSITIVE 185 76 39 95 56 aact:AA01267|3end_degenerate_transposase_fragment_862610..862760_POSITIVE 183 76 31 137 91 aact:AA00568|3end_hypothetical_protein_391276..391426_POSITIVE 183 47 19 41 2 aact:AA00076|3end_dihydroneopterin_aldolase_56083..56233_POSITIVE