Origin IGS: catgggagtatgttgggttaaattatcttctaaaatcatacactttaaaattaactaattggtttttaatagttttataaatcgtatctatgtcaacaggtttctgtaagtcctactaaatcccta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tagggatttagtaggacttacagaaacctgttgacatagatacgatttataaaactattaaaaaccaattagttaattttaaagtgtatgattttagaagataatttaacccaacatactcccatg Mask Tandem Repeat Region ================================================ catgggagtatgttgggttaaattatcttctaaaatcatacactttaaaattaactaattggtttttaatagttttataaatcgtatctatgtcaacaggtttctgtaagtcctactaaatcccta Find is-nt database================================================ Query_seq: AA00317:AA00318|AA00317:AA00318:DNA mismatch repair protein:hypothetical protein:->->:218171..218296 126 catgggagtatgttgggttaaattatcttctaaaatcatacactttaaaattaactaattggtttttaatagttttataaatcgtatctatgtcaacaggtttctgtaagtcctactaaatcccta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00317:AA00318|AA00317:AA00318:DNA mismatch repair protein:hypothetical protein:->->:218171..218296 126 catgggagtatgttgggttaaattatcttctaaaatcatacactttaaaattaactaattggtttttaatagttttataaatcgtatctatgtcaacaggtttctgtaagtcctactaaatcccta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00317:AA00318|AA00317:AA00318:DNA mismatch repair protein:hypothetical protein:->->:218171..218296 126 catgggagtatgttgggttaaattatcttctaaaatcatacactttaaaattaactaattggtttttaatagttttataaatcgtatctatgtcaacaggtttctgtaagtcctactaaatcccta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 catgggagtatgttgggttaaattatcttctaaaatcatacactttaaaattaactaattggtttttaatagttttataaatcgtatctatgtcaacaggtttctgtaagtcctactaaatcccta Predict ORF larger than 30AA ================================================ catgggagtatgttgggttaaattatcttctaaaatcatacactttaaaattaactaattggtttttaatagttttataaatcgtatctatgtcaacaggtttctgtaagtcctactaaatcccta 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: 81 Start: 22 End: 51 .....................ATTATCTTCTAAAATCATACACTTTAAAAT........................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ catgggagtatgttgggttaaattatcttctaaaatcatacactttaaaattaactaattggtttttaatagttttataaatcgtatctatgtcaacaggtttctgtaagtcctactaaatcccta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA00317:AA00318|AA00317:AA00318:DNA mismatch repair protein:hypothetical protein:->->:218171..218296 126 catgggagtatgttgggttaaattatcttctaaaatcatacactttaaaattaactaattggtttttaatagttttataaatcgtatctatgtcaacaggtttctgtaagtcctactaaatcccta Intra-Species Hit: Count: 1 Min: 1 Max: 126 Len: 126 Subject: aact_AA00317_AA00318|DNA mismatch repair protein:hypothetical protein|POSITIVE:POSITIVE|[218171,218296]|126 HSP 1 e-value: 9.0E-66 bit: 250.0 Len: 126 Query Start:1 Query End:126 Subject Strand: POSITIVE Subject Start: 1 Subject End: 126 catgggagtatgttgggttaaattatcttctaaaatcatacactttaaaattaactaattggtttttaatagttttataaatcgtatctatgtcaacaggtttctgtaagtcctactaaatcccta catgggagtatgttgggttaaattatcttctaaaatcatacactttaaaattaactaattggtttttaatagttttataaatcgtatctatgtcaacaggtttctgtaagtcctactaaatcccta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CAUGGGAGUAUGUUGGGUUAAAUUAUCUUCUAAAAUCAUACACUUUAAAAUUAACUAAUUGGUUUUUAAUAGUUUUAUAAAUCGUAUCUAUGUCAACAGGUUUCUGUAAGUCCUACUAAAUCCCUA ...((((....((.(((..(((((((.....(((((((.....................)))))))..)))))))....................((((....))))...))).))....)))).. (-16.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGGGAUUUAGUAGGACUUACAGAAACCUGUUGACAUAGAUACGAUUUAUAAAACUAUUAAAAACCAAUUAGUUAAUUUUAAAGUGUAUGAUUUUAGAAGAUAAUUUAACCCAACAUACUCCCAUG ..((((((((((((.....((((....))))....((((((...))))))....))))))))........(((((.(((((((((.....)))))))))..))))).............))))... (-18.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 232 115 88 143 118 aact:AA01335|5end_primosomal_protein_N'_901993..902223_POSITIVE 212 104 61 226 188 aact:AA01739|5end_conserved_hypothetical_protein_1175578..1175808_POSITIVE 208 30 4 165 143 aact:AA00525|5end_hypothetical_protein_359254..359484_POSITIVE 199 37 4 209 168 aact:AA02913|5end_ribosomal_large_subunit_pseudouridine_synthase_2039491..2039721_POSITIVE 194 114 72 184 150 aact:AA02999|5end_conserved_hypothetical_protein_2094275..2094505_POSITIVE 194 39 1 63 16 aact:AA01685|5end_molybdenum_ABC_transporter,_ATP-binding_protein_1136979..1137209_POSITIVE 194 96 54 198 154 aact:AA00814|5end_conserved_hypothetical_protein_559125..559355_POSITIVE 193 118 71 183 129 aact:AA02670|5end_hypothetical_protein_1858049..1858279_POSITIVE 192 117 71 130 87 aact:AA00187|5end_conserved_hypothetical_protein_132349..132579_POSITIVE 189 116 71 197 157 aact:AA01130|5end_conserved_hypothetical_protein_774692..774922_POSITIVE 189 116 71 118 78 aact:AA01129|5end_hypothetical_protein_774613..774843_POSITIVE 184 48 3 106 57 aact:AA00416|5end_D-methionine_transport_system_permease_protein_(ABC_transport_system)_282677..282907_POSITIVE 183 31 6 174 152 aact:AA01013|5end_phosphomannomutase_708029..708259_POSITIVE 182 110 61 150 95 aact:AA02450|5end_conserved_hypothetical_protein_1687701..1687931_POSITIVE 181 45 1 75 26 aact:AA01855|5end_transcriptional_regulator,_Cro/CI_family_1247009..1247239_POSITIVE 179 27 2 68 38 aact:AA00817|5end_MutT-family_protein_561775..562005_POSITIVE 177 47 2 86 25 aact:AA01966|5end_2-amino-4-hydroxy-6-hydroxymethyldihydropteridine_pyrophosphokinase_1330937..1331167_POSITIVE 177 101 63 140 98 aact:AA01561|5end_conserved_hypothetical_protein_1046505..1046735_POSITIVE 176 22 2 135 114 aact:AA01715|5end_conserved_hypothetical_protein_1160480..1160710_POSITIVE 175 118 79 231 179 aact:AA02545|5end_conserved_hypothetical_protein_1773965..1774195_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 212 104 61 132 94 aact:AA01738|3end_enoyl-(acyl-carrier-protein)_reductase_1175564..1175714_POSITIVE 194 113 81 71 46 aact:AA01816|3end_hypothetical_protein_1224134..1224284_POSITIVE 194 39 1 63 16 aact:AA01684|3end_ABC_transporter,_ATP-binding_protein;_possible_ATP-binding_component_of_sulfate_permease_A_protein_1137059..1137209_POSITIVE 192 117 71 146 103 aact:AA00186|3end_o-succinylbenzoate-CoA_synthase;_OSB_synthase_132445..132595_POSITIVE 190 116 81 41 9 aact:AA01866|3end_thiamin_ABC_transporter,_permease_protein_1254946..1255096_POSITIVE 186 17 1 49 30 aact:AA00813|3end_hypothetical_protein_559021..559171_POSITIVE 185 113 81 116 76 aact:AA02697|3end_hydrogenase_3_maturation_protease_1880408..1880558_POSITIVE 184 48 3 113 64 aact:AA00415|3end_D-methionine_ABC_transporter,_ATP-binding_protein_282764..282914_POSITIVE 183 31 6 139 117 aact:AA01012|3end_probable_carbon_storage_regulator_homolog_708074..708224_POSITIVE 183 96 70 140 118 aact:AA00440|3end_hypothetical_protein_305785..305935_POSITIVE 181 45 1 75 26 aact:AA01854|3end_conserved_hypothetical_protein_1247089..1247239_POSITIVE 177 47 2 90 29 aact:AA01965|3end_poly(A)_polymerase_1331021..1331171_POSITIVE 177 101 63 60 18 aact:AA01559|3end_RecA_regulatory_protein,_RecX_1046505..1046655_POSITIVE 176 22 2 77 56 aact:AA01711|3end_conserved_hypothetical_protein_1160502..1160652_POSITIVE 175 118 79 131 79 aact:AA02544|3end_ATP-dependent_RNA_helicase_1773945..1774095_POSITIVE 175 88 46 60 17 aact:AA02120|3end_nonheme_ferritin_1447743..1447893_POSITIVE 174 99 65 46 16 aact:AA03003|3end_GTP-binding_membrane_protein_2098447..2098597_POSITIVE 174 33 2 41 3 aact:AA01268|3end_transposase_863217..863367_POSITIVE 173 31 1 69 40 aact:AA02242|3end_molybdenum_cofactor_biosynthesis_protein_A_1525088..1525238_POSITIVE 172 118 81 110 81 aact:AA02386|3end_hypothetical_protein_1634730..1634880_POSITIVE