Origin IGS: ggattaactagtattacttagtaatagggtttctattgtatcctcctacctgataataaaaactaataaaagaggttgaatcattttccaacctctttttgtgtatc .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 gatacacaaaaagaggttggaaaatgattcaacctcttttattagtttttattatcaggtaggaggatacaatagaaaccctattactaagtaatactagttaatcc Mask Tandem Repeat Region ================================================ ggattaactagtattacttagtaatagggtttctattgtatcctcctacctgataataaaaactaataaaagaggttgaatcattttccaacctctttttgtgtatc Find is-nt database================================================ Query_seq: SMT_1267:SMT_1268|SMT_1267:SMT_1268:hypothetical protein:acetoin reductase:-><-:1232638..1232744 107 ggattaactagtattacttagtaatagggtttctattgtatcctcctacctgataataaaaactaataaaagaggttgaatcattttccaacctctttttgtgtatc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_1267:SMT_1268|SMT_1267:SMT_1268:hypothetical protein:acetoin reductase:-><-:1232638..1232744 107 ggattaactagtattacttagtaatagggtttctattgtatcctcctacctgataataaaaactaataaaagaggttgaatcattttccaacctctttttgtgtatc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_1267:SMT_1268|SMT_1267:SMT_1268:hypothetical protein:acetoin reductase:-><-:1232638..1232744 107 ggattaactagtattacttagtaatagggtttctattgtatcctcctacctgataataaaaactaataaaagaggttgaatcattttccaacctctttttgtgtatc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ggattaactagtattacttagtaatagggtttctattgtatcctcctacctgataataaaaactaataaaagaggttgaatcattttccaacctctttttgtgtatc Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: - Start: 17 End: 106 ................ K T I P N R N Y G G V Q Y Y F S I F S T S D N E L R K K H M . ggattaactagtattacttagtaatagggtttctattgtatcctcctacctgataataaaaactaataaaagaggttgaatcattttccaacctctttttgtgtatc 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================================================ ggattaactagtattacttagtaatagggtttctattgtatcctcctacctgataataaaaactaataaaagaggttgaatcattttccaacctctttttgtgtatc Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_1267:SMT_1268|SMT_1267:SMT_1268:hypothetical protein:acetoin reductase:-><-:1232638..1232744 107 ggattaactagtattacttagtaatagggtttctattgtatcctcctacctgataataaaaactaataaaagaggttgaatcattttccaacctctttttgtgtatc Intra-Species Hit: Count: 1 Min: 1 Max: 107 Len: 107 Subject: smit_SMT_1267_SMT_1268|hypothetical protein:acetoin reductase|POSITIVE:NEGATIVE|[1232638,1232744]|107 HSP 1 e-value: 2.0E-54 bit: 212.0 Len: 107 Query Start:1 Query End:107 Subject Strand: POSITIVE Subject Start: 1 Subject End: 107 ggattaactagtattacttagtaatagggtttctattgtatcctcctacctgataataaaaactaataaaagaggttgaatcattttccaacctctttttgtgtatc ggattaactagtattacttagtaatagggtttctattgtatcctcctacctgataataaaaactaataaaagaggttgaatcattttccaacctctttttgtgtatc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GGAUUAACUAGUAUUACUUAGUAAUAGGGUUUCUAUUGUAUCCUCCUACCUGAUAAUAAAAACUAAUAAAAGAGGUUGAAUCAUUUUCCAACCUCUUUUUGUGUAUC ((((....(((.....((((....))))....)))....))))..................((....(((((((((((..........)))))))))))...))... (-21.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAUACACAAAAAGAGGUUGGAAAAUGAUUCAACCUCUUUUAUUAGUUUUUAUUAUCAGGUAGGAGGAUACAAUAGAAACCCUAUUACUAAGUAAUACUAGUUAAUCC ........(((((((((((((......))))))))))))).(((..(..((((((..(((((.(((.............))).)))))..))))))..)..)))... (-25.12) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 258 50 1 106 42 smit:SMT_722|5end_Tn5252,_Orf_9_protein_629106..629336_NEGATIVE 250 99 63 223 183 smit:SMT_1778|5end_ATP-dependent_RNA_helicase_1754954..1755184_NEGATIVE 250 52 16 69 28 smit:SMT_957|5end_UDP-glucose_4-epimerase_905003..905233_NEGATIVE 250 52 16 69 28 smit:SMT_950|5end_UDP-glucose_4-epimerase_898696..898926_NEGATIVE 242 52 26 72 42 smit:SMT_432|5end_UDP-N-acetylglucosamine--N-acetylmuramyl-_(pentapeptide)_pyrophosphoryl-undecaprenol_N-acetylglucosamine_transferase_373553..373783_POSITIVE 235 98 68 105 71 smit:SMT_1107|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1048081..1048311_NEGATIVE 235 98 68 214 180 smit:SMT_1106|5end_ribonuclease_P_protein_component_1047972..1048202_NEGATIVE 228 53 21 41 4 smit:SMT_982|5end_D-tyrosyl-tRNA(Tyr)_deacylase_929654..929884_NEGATIVE 223 95 63 135 101 smit:SMT_1779|5end_hypothetical_protein_1755908..1756138_NEGATIVE 222 47 1 229 177 smit:SMT_789|5end_hypothetical_protein_701072..701302_NEGATIVE 221 100 72 145 117 smit:SMT_236|5end_ribosomal_small_subunit_pseudouridine_synthase_A_174625..174855_POSITIVE 205 98 69 230 202 smit:SMT_138|5end_tRNA_(5-methylaminomethyl-2-thiouridylate)-methyltransferase_89262..89492_POSITIVE 204 44 1 166 129 smit:SMT_310|5end_3-oxoacyl-_251370..251600_POSITIVE 203 55 28 179 138 smit:SMT_1038|5end_MSM_(multiple_sugar_metabolism)_operon_regulatory_protein_979735..979965_POSITIVE 203 55 28 111 70 smit:SMT_1031|5end_MSM_(multiple_sugar_metabolism)_operon_regulatory_protein_967887..968117_POSITIVE 197 55 23 227 190 smit:SMT_1102|5end_transketolase_1045005..1045235_NEGATIVE 196 52 20 117 83 smit:SMT_387|5end_hypothetical_protein_predicted_by_Glimmer/Critica_320937..321167_POSITIVE 195 58 17 81 39 smit:SMT_749|5end_shikimate_kinase_653971..654201_NEGATIVE 194 89 41 151 98 smit:SMT_1568|5end_putative_transketolase_C-terminal_section_1560122..1560352_POSITIVE 192 99 61 106 77 smit:SMT_1191|5end_phosphoribosylamine--glycine_ligase_1149737..1149967_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 294 89 43 138 88 smit:SMT_769|3end_spermidine/putrescine-binding_periplasmic_protein_679519..679669_NEGATIVE 258 50 1 96 32 smit:SMT_723|3end_hypothetical_protein_629116..629266_NEGATIVE 250 99 63 84 44 smit:SMT_1779|3end_hypothetical_protein_1755093..1755243_NEGATIVE 242 52 26 70 40 smit:SMT_431|3end_UDP-N-acetylmuramoyl-L-alanyl-D-glutamate_synthetase_373631..373781_POSITIVE 235 98 68 64 30 smit:SMT_1108|3end_acetate_kinase_1048122..1048272_NEGATIVE 223 95 63 83 49 smit:SMT_1780|3end_PTS_system,_glucose-specific_IIABC_component_1755960..1756110_NEGATIVE 204 44 1 122 85 smit:SMT_309|3end_acyl-carrier-protein_S-malonyltransferase_251406..251556_POSITIVE 202 55 20 134 99 smit:SMT_78|3end_tryptophanyl-tRNA_synthetase_5506..5656_NEGATIVE 197 55 23 111 74 smit:SMT_1103|3end_hypothetical_protein_1045121..1045271_NEGATIVE 197 100 65 81 43 smit:SMT_411|3end_thymidylate_synthase_356415..356565_POSITIVE 196 52 20 102 68 smit:SMT_386|3end_branched-chain_amino_acid_transport_system_II_carrier_protein_321002..321152_POSITIVE 196 100 65 87 55 smit:SMT_162|3end_hypothetical_protein_107134..107284_POSITIVE 195 58 17 88 46 smit:SMT_750|3end_3-phosphoshikimate_1-carboxyvinyltransferase_653964..654114_NEGATIVE 194 47 13 122 90 smit:SMT_1505|3end_purine-nucleoside_phosphorylase_1487805..1487955_NEGATIVE 193 100 54 91 44 smit:SMT_1299|3end_MutT/NUDIX_family_protein_1262572..1262722_POSITIVE 193 46 9 99 64 smit:SMT_603|3end_hypothetical_protein_518532..518682_POSITIVE 192 49 1 94 42 smit:SMT_592|3end_amino_acid_ABC_transporter,_ATP-binding_protein_509468..509618_POSITIVE 192 47 1 107 62 smit:SMT_491|3end_K01998_branched-chain_amino_acid_transport_system_permease_protein_426453..426603_POSITIVE 185 59 24 90 59 smit:SMT_1097|3end_alcohol_dehydrogenase_/_acetaldehyde_dehydrogenase_1038697..1038847_NEGATIVE 184 98 68 75 45 smit:SMT_1062|3end_hypothetical_protein_1000648..1000798_POSITIVE