Origin IGS: gatggagatcctttatctgcaacaaatttacgcaaacaaaaaagaattgtcgttataaaacgatcggaagttaccatgactgtgcagcgctcatcgtttgttta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taaacaaacgatgagcgctgcacagtcatggtaacttccgatcgttttataacgacaattcttttttgtttgcgtaaatttgttgcagataaaggatctccatc Mask Tandem Repeat Region ================================================ gatggagatcctttatctgcaacaaatttacgcaaacaaaaaagaattgtcgttataaaacgatcggaagttaccatgactgtgcagcgctcatcgtttgttta Find is-nt database================================================ Query_seq: TF1910:TF1911|TF1910:TF1911:nicotinate-nucleotide--dimethylbenzimidazole phosphoribosyltransferase:conserved hypothetical protein:->->:2065179..2065282 104 gatggagatcctttatctgcaacaaatttacgcaaacaaaaaagaattgtcgttataaaacgatcggaagttaccatgactgtgcagcgctcatcgtttgttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1910:TF1911|TF1910:TF1911:nicotinate-nucleotide--dimethylbenzimidazole phosphoribosyltransferase:conserved hypothetical protein:->->:2065179..2065282 104 gatggagatcctttatctgcaacaaatttacgcaaacaaaaaagaattgtcgttataaaacgatcggaagttaccatgactgtgcagcgctcatcgtttgttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1910:TF1911|TF1910:TF1911:nicotinate-nucleotide--dimethylbenzimidazole phosphoribosyltransferase:conserved hypothetical protein:->->:2065179..2065282 104 gatggagatcctttatctgcaacaaatttacgcaaacaaaaaagaattgtcgttataaaacgatcggaagttaccatgactgtgcagcgctcatcgtttgttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gatggagatcctttatctgcaacaaatttacgcaaacaaaaaagaattgtcgttataaaacgatcggaagttaccatgactgtgcagcgctcatcgtttgttta Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: + Start: 15 End: 104 .............. M C N K F T Q T K K N C R Y K T I G S Y H D C A A L I V C L gatggagatcctttatctgcaacaaatttacgcaaacaaaaaagaattgtcgttataaaacgatcggaagttaccatgactgtgcagcgctcatcgtttgttta 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================================================ gatggagatcctttatctgcaacaaatttacgcaaacaaaaaagaattgtcgttataaaacgatcggaagttaccatgactgtgcagcgctcatcgtttgttta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF1910:TF1911|TF1910:TF1911:nicotinate-nucleotide--dimethylbenzimidazole phosphoribosyltransferase:conserved hypothetical protein:->->:2065179..2065282 104 gatggagatcctttatctgcaacaaatttacgcaaacaaaaaagaattgtcgttataaaacgatcggaagttaccatgactgtgcagcgctcatcgtttgttta Intra-Species Hit: Count: 1 Min: 1 Max: 104 Len: 104 Subject: tfor_TF1910_TF1911|nicotinate-nucleotide--dimethylbenzimidazole phosphoribosyltransferase:conserved hypothetical protein|POSITIVE:POSITIVE|[2065179,2065282]|104 HSP 1 e-value: 1.0E-52 bit: 206.0 Len: 104 Query Start:1 Query End:104 Subject Strand: POSITIVE Subject Start: 1 Subject End: 104 gatggagatcctttatctgcaacaaatttacgcaaacaaaaaagaattgtcgttataaaacgatcggaagttaccatgactgtgcagcgctcatcgtttgttta gatggagatcctttatctgcaacaaatttacgcaaacaaaaaagaattgtcgttataaaacgatcggaagttaccatgactgtgcagcgctcatcgtttgttta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAUGGAGAUCCUUUAUCUGCAACAAAUUUACGCAAACAAAAAAGAAUUGUCGUUAUAAAACGAUCGGAAGUUACCAUGACUGUGCAGCGCUCAUCGUUUGUUUA (((((((...)))))))...(((((((...(((..(((..........((((((....)))))).((......)).....)))...)))......))))))).. (-16.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAACAAACGAUGAGCGCUGCACAGUCAUGGUAACUUCCGAUCGUUUUAUAACGACAAUUCUUUUUUGUUUGCGUAAAUUUGUUGCAGAUAAAGGAUCUCCAUC .......((.((((.(........))))).))....(((..(((((....))))).........((((((((((.........)))))))))))))........ (-18.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 310 96 51 230 173 tfor:TF0970|5end_2-keto-3-deoxygluconate_kinase_1020396..1020626_POSITIVE 293 96 51 211 153 tfor:TF0464|5end_precorrin_methylase_480211..480441_POSITIVE 292 100 62 227 190 tfor:TF0971|5end_conserved_hypothetical_protein_1021355..1021585_POSITIVE 279 97 61 195 147 tfor:TF1179|5end_two-component_sensor_histidine_kinase_1266057..1266287_POSITIVE 277 100 51 150 87 tfor:TF0321|5end_glycosyltransferase_347438..347668_POSITIVE 273 89 51 229 187 tfor:TF2307|5end_two-component_system_sensor_histidine_kinase/response_2462618..2462848_POSITIVE 273 96 61 220 177 tfor:TF1268|5end_conserved_hypothetical_protein_1354085..1354315_POSITIVE 273 98 64 53 18 tfor:TF0213|5end_conserved_hypothetical_protein_238921..239151_POSITIVE 272 96 51 71 25 tfor:TF2677|5end_aspartate_transaminase_2850809..2851039_POSITIVE 272 90 44 102 59 tfor:TF0104|5end_redox-sensitive_transcriptional_activator,_OxyR_112287..112517_POSITIVE 270 98 51 61 16 tfor:TF0697|5end_glycerol-3-phosphate_cytidyltransferase_740667..740897_POSITIVE 269 96 61 48 2 tfor:TF0789|5end_preprotein_translocase,_secDF_family_841293..841523_POSITIVE 266 98 61 61 25 tfor:TF2349|5end_conserved_hypothetical_protein_2513192..2513422_POSITIVE 266 90 64 226 200 tfor:TF0730|5end_conserved_hypothetical_protein_782249..782479_POSITIVE 264 90 41 117 73 tfor:TF2980|5end_possible_alpha-amylase_3193179..3193409_POSITIVE 264 90 47 202 159 tfor:TF1599|5end_ribonuclease_P_protein_component_1713564..1713794_POSITIVE 262 90 41 199 145 tfor:TF0587|5end_outer_membrane_protein_618319..618549_POSITIVE 261 88 44 80 28 tfor:TF3008|5end_zinc_protease_3228041..3228271_POSITIVE 261 99 58 160 108 tfor:TF2761|5end_thioredoxin_2945390..2945620_POSITIVE 260 97 51 50 5 tfor:TF0826|5end_primosomal_protein_N'_883751..883981_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 308 100 51 126 78 tfor:TF1049|3end_cobyrinic_acid_a,c-diamide_synthase_1111539..1111689_POSITIVE 283 85 43 61 23 tfor:TF2714|3end_hypothetical_protein_2888650..2888800_POSITIVE 279 88 49 151 110 tfor:TF3127|3end_acetyltransferase,_possible_GNAT_family_3362234..3362384_POSITIVE 277 100 51 150 87 tfor:TF0320|3end_dihydroorotase_347518..347668_POSITIVE 273 98 64 53 18 tfor:TF0212|3end_DNA/pantothenate_metabolism_flavoprotein_239001..239151_POSITIVE 270 98 51 55 10 tfor:TF0696|3end_3-oxoacyl-(acyl-carrier-protein)_reductase_740741..740891_POSITIVE 268 99 57 43 1 tfor:TF0883|3end_hypothetical_protein_937472..937622_POSITIVE 266 98 61 41 5 tfor:TF2348|3end_outer_membrane_protein,_possibly_involved_in_nutrient_binding_2513252..2513402_POSITIVE 261 99 58 139 87 tfor:TF2760|3end_MarR__family_transcriptional_regulator_2945449..2945599_POSITIVE 260 97 51 69 24 tfor:TF0825|3end_hypothetical_protein_883850..884000_POSITIVE 259 98 51 150 104 tfor:TF2397|3end_magnesium_and_cobalt_transport_protein_2569569..2569719_POSITIVE 259 100 61 94 61 tfor:TF2392|3end_alpha-galactosidase_2565506..2565656_POSITIVE 256 90 61 68 27 tfor:TF1915|3end_NAD-dependent_protein_deacetylase,_SIR2_family_2068489..2068639_POSITIVE 255 97 59 90 56 tfor:TF0242|3end_conserved_hypothetical_protein_274069..274219_POSITIVE 250 100 51 116 63 tfor:TF2336|3end_conserved_hypothetical_protein_2498159..2498309_POSITIVE 247 100 61 130 96 tfor:TF2024|3end_conserved_hypothetical_protein_2181979..2182129_POSITIVE 246 97 51 48 2 tfor:TF2808|3end_bacterial_sugar_transferase_2999909..3000059_POSITIVE 246 90 47 111 62 tfor:TF1829|3end_2-isopropylmalate_synthase_1978929..1979079_POSITIVE 246 99 61 54 21 tfor:TF1719|3end_ribonuclease_R_1843668..1843818_POSITIVE 245 100 51 98 56 tfor:TF3064|3end_oxidoreductase,_aldo/keto_reductase_family_3290984..3291134_POSITIVE