Origin IGS: agtttgataataagaacttggctaaaataggtactcgggcatttgtaagattatattcatgattattgcatcgtctatcgggcagtcaccatttttccattgagccctaattatctatataatagcaatcgtttcaggatctttatgcaacagtttttataataagtgtatcacgtattgaactaattctgcctttactactccgtcgatactttttccaccgatcactttaatctcaacataaagcatattaatttagctta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taagctaaattaatatgctttatgttgagattaaagtgatcggtggaaaaagtatcgacggagtagtaaaggcagaattagttcaatacgtgatacacttattataaaaactgttgcataaagatcctgaaacgattgctattatatagataattagggctcaatggaaaaatggtgactgcccgatagacgatgcaataatcatgaatataatcttacaaatgcccgagtacctattttagccaagttcttattatcaaact Mask Tandem Repeat Region ================================================ agtttgataataagaacttggctaaaataggtactcgggcatttgtaagattatattcatgattattgcatcgtctatcgggcagtcaccatttttccattgagccctaattatctatataatagcaatcgtttcaggatctttatgcaacagtttttataataagtgtatcacgtattgaactaattctgcctttactactccgtcgatactttttccaccgatcactttaatctcaacataaagcatattaatttagctta Find is-nt database================================================ Query_seq: AA01022:AA01023|AA01022:AA01023:tRNA (5-methylaminomethyl-2-thiouridylate) methyltransferase:conserved hypothetical protein:->->:715978..716240 263 agtttgataataagaacttggctaaaataggtactcgggcatttgtaagattatattcatgattattgcatcgtctatcgggcagtcaccatttttccattgagccctaattatctatataatagcaatcgtttcaggatctttatgcaacagtttttataataagtgtatcacgtattgaactaattctgcctttactactccgtcgatactttttccaccgatcactttaatctcaacataaagcatattaatttagctta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA01022:AA01023|AA01022:AA01023:tRNA (5-methylaminomethyl-2-thiouridylate) methyltransferase:conserved hypothetical protein:->->:715978..716240 263 agtttgataataagaacttggctaaaataggtactcgggcatttgtaagattatattcatgattattgcatcgtctatcgggcagtcaccatttttccattgagccctaattatctatataatagcaatcgtttcaggatctttatgcaacagtttttataataagtgtatcacgtattgaactaattctgcctttactactccgtcgatactttttccaccgatcactttaatctcaacataaagcatattaatttagctta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA01022:AA01023|AA01022:AA01023:tRNA (5-methylaminomethyl-2-thiouridylate) methyltransferase:conserved hypothetical protein:->->:715978..716240 263 agtttgataataagaacttggctaaaataggtactcgggcatttgtaagattatattcatgattattgcatcgtctatcgggcagtcaccatttttccattgagccctaattatctatataatagcaatcgtttcaggatctttatgcaacagtttttataataagtgtatcacgtattgaactaattctgcctttactactccgtcgatactttttccaccgatcactttaatctcaacataaagcatattaatttagctta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 agtttgataataagaacttggctaaaataggtactcgggcatttgtaagattatattcatgattattgcatcgtctatcgggcagtcaccatttttccattgagccctaattatctatataatagcaatcgtttcaggatctttatgcaacagtttttataataagtgtatcacgtattgaactaattctgcctttactactccgtcgatactttttccaccgatcactttaatctcaacataaagcatattaatttagctta Predict ORF larger than 30AA ================================================ Protein_Len: 35 Strand: + Start: 55 End: 159 ...................................................... M H D Y C I V Y R A V T I F P L S P N Y L Y N S N R F R I F M Q Q F L ........................................................................................................ Protein_Len: 32 Strand: - Start: 160 End: 255 ............................................................................................................................................................... L L H I V Y Q V L E A K V V G D I S K G G I V K I E V Y L M N M ........ Protein_Len: 30 Strand: - Start: 25 End: 114 ........................ F L Y E P M Q L I I N M I I A D D I P C D G N K W Q A R I M ..................................................................................................................................................... agtttgataataagaacttggctaaaataggtactcgggcatttgtaagattatattcatgattattgcatcgtctatcgggcagtcaccatttttccattgagccctaattatctatataatagcaatcgtttcaggatctttatgcaacagtttttataataagtgtatcacgtattgaactaattctgcctttactactccgtcgatactttttccaccgatcactttaatctcaacataaagcatattaatttagctta 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: 94 End: 123 .............................................................................................TTTCCATTGAGCCCTAATTATCTATATAAT............................................................................................................................................ Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ agtttgataataagaacttggctaaaataggtactcgggcatttgtaagattatattcatgattattgcatcgtctatcgggcagtcaccatttttccattgagccctaattatctatataatagcaatcgtttcaggatctttatgcaacagtttttataataagtgtatcacgtattgaactaattctgcctttactactccgtcgatactttttccaccgatcactttaatctcaacataaagcatattaatttagctta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA01022:AA01023|AA01022:AA01023:tRNA (5-methylaminomethyl-2-thiouridylate) methyltransferase:conserved hypothetical protein:->->:715978..716240 263 agtttgataataagaacttggctaaaataggtactcgggcatttgtaagattatattcatgattattgcatcgtctatcgggcagtcaccatttttccattgagccctaattatctatataatagcaatcgtttcaggatctttatgcaacagtttttataataagtgtatcacgtattgaactaattctgcctttactactccgtcgatactttttccaccgatcactttaatctcaacataaagcatattaatttagctta Intra-Species Hit: Count: 1 Min: 1 Max: 263 Len: 263 Subject: aact_AA01022_AA01023|tRNA (5-methylaminomethyl-2-thiouridylate) methyltransferase:conserved hypothetical protein|POSITIVE:POSITIVE|[715978,716240]|263 HSP 1 e-value: 1.0E-147 bit: 521.0 Len: 263 Query Start:1 Query End:263 Subject Strand: POSITIVE Subject Start: 1 Subject End: 263 agtttgataataagaacttggctaaaataggtactcgggcatttgtaagattatattcatgattattgcatcgtctatcgggcagtcaccatttttccattgagccctaattatctatataatagcaatcgtttcaggatctttatgcaacagtttttataataagtgtatcacgtattgaactaattctgcctttactactccgtcgatactttttccaccgatcactttaatctcaacataaagcatattaatttagctta agtttgataataagaacttggctaaaataggtactcgggcatttgtaagattatattcatgattattgcatcgtctatcgggcagtcaccatttttccattgagccctaattatctatataatagcaatcgtttcaggatctttatgcaacagtttttataataagtgtatcacgtattgaactaattctgcctttactactccgtcgatactttttccaccgatcactttaatctcaacataaagcatattaatttagctta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGUUUGAUAAUAAGAACUUGGCUAAAAUAGGUACUCGGGCAUUUGUAAGAUUAUAUUCAUGAUUAUUGCAUCGUCUAUCGGGCAGUCACCAUUUUUCCAUUGAGCCCUAAUUAUCUAUAUAAUAGCAAUCGUUUCAGGAUCUUUAUGCAACAGUUUUUAUAAUAAGUGUAUCACGUAUUGAACUAAUUCUGCCUUUACUACUCCGUCGAUACUUUUUCCACCGAUCACUUUAAUCUCAACAUAAAGCAUAUUAAUUUAGCUUA .(((.(((.(((((((((..((......((((.((..(((..((((...(((((((..(((((((..((.(((.......((......))..........)))))..)))))))..))))))).))))..)))..)).))))....))...)))))))))...(((((.(((..(((.((((...........)))).)))...((.((.......)).)).))))))))..)))..)))...((((.((......)))))). (-39.63) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAGCUAAAUUAAUAUGCUUUAUGUUGAGAUUAAAGUGAUCGGUGGAAAAAGUAUCGACGGAGUAGUAAAGGCAGAAUUAGUUCAAUACGUGAUACACUUAUUAUAAAAACUGUUGCAUAAAGAUCCUGAAACGAUUGCUAUUAUAUAGAUAAUUAGGGCUCAAUGGAAAAAUGGUGACUGCCCGAUAGACGAUGCAAUAAUCAUGAAUAUAAUCUUACAAAUGCCCGAGUACCUAUUUUAGCCAAGUUCUUAUUAUCAAACU .........((((((((...))))))))......((..((((..(((.....(((((((((.............(((....))).....((((((....)))))).....)))))).)))....))).....))))..))........((((((.((((((...(((.(((((((..(((...........(((......)))..((......)).............)))..)))))))..))))))))).))))))..... (-43.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 319 219 173 180 142 aact:AA02409|5end_DNA_ligase_1653315..1653545_POSITIVE 291 108 67 103 55 aact:AA00616|5end_phosphatidate_cytidylyltransferase_421965..422195_POSITIVE 283 227 189 42 8 aact:AA01732|5end_multidrug_resistance_protein_A_1170677..1170907_POSITIVE 283 106 65 174 115 aact:AA01355|5end_large_subunit_pseudouridylate_synthase_D_917228..917458_POSITIVE 282 106 66 229 188 aact:AA01357|5end_5-formyltetrahydrofolate_cyclo-ligase-family_protein_919133..919363_POSITIVE 282 230 189 230 181 aact:AA01211|5end_ATP-dependent_Clp_protease,_ATPase_subunit_827035..827265_POSITIVE 282 230 189 98 49 aact:AA01210|5end_hypothetical_protein_826903..827133_POSITIVE 280 90 41 49 2 aact:AA02961|5end_pyrroline-5-carboxylate_reductase_2070785..2071015_POSITIVE 277 99 58 42 2 aact:AA00106|5end_1-hydroxy-2-methyl-2-(E)-butenyl_4-diphosphate_synthase_75544..75774_POSITIVE 268 106 68 67 30 aact:AA01245|5end_tyrosine-specific_transport_protein_2_848375..848605_POSITIVE 266 99 58 157 105 aact:AA02196|5end_oxaloacetate_decarboxylase_beta_chain_1496308..1496538_POSITIVE 266 225 187 167 125 aact:AA02090|5end_glucose-1-phosphate_adenylyltransferase_1423162..1423392_POSITIVE 265 228 187 193 147 aact:AA01338|5end_hypothetical_protein_904967..905197_POSITIVE 263 108 66 74 30 aact:AA01598|5end_conserved_hypothetical_protein_1078954..1079184_POSITIVE 263 72 31 67 29 aact:AA01551|5end_hypothetical_protein_1038190..1038420_POSITIVE 260 235 191 207 169 aact:AA01635|5end_ribonucleoside_diphosphate_reductase,_beta_chain_1104615..1104845_POSITIVE 260 204 166 107 63 aact:AA00650|5end_15_kDa_peptidoglycan-associated_protein_444498..444728_POSITIVE 258 107 72 106 61 aact:AA00163|5end_type_IV_prepilin_peptidase;_type_II_secretion_pathway_related_protein_116006..116236_POSITIVE 256 103 61 221 177 aact:AA02689|5end_hydrogenase-4_component_F_1874620..1874850_POSITIVE 252 230 188 188 135 aact:AA02681|5end_hypothetical_protein_1865749..1865979_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 291 108 67 100 52 aact:AA00615|3end_cation_transport_protein_422042..422192_POSITIVE 284 47 4 82 42 aact:AA01404|3end_hypothetical_protein_948834..948984_POSITIVE 282 230 189 122 73 aact:AA01209|3end_conserved_hypothetical_protein_827007..827157_POSITIVE 266 99 58 143 91 aact:AA02195|3end_oxaloacetate_decarboxylase_alpha_chain_1496374..1496524_POSITIVE 266 225 187 137 95 aact:AA02089|3end_glycogen_operon_protein_1423212..1423362_POSITIVE 263 72 31 89 51 aact:AA01550|3end_hypothetical_protein_1038292..1038442_POSITIVE 263 47 4 60 20 aact:AA00631|3end_hypothetical_protein_433928..434078_POSITIVE 258 107 72 106 61 aact:AA00162|3end_pilin_C_biogenesis_protein/protein_transport_protein_116086..116236_POSITIVE 256 108 65 121 78 aact:AA00093|3end_L-serine_dehydratase_(L-serine_deaminase)_71173..71323_POSITIVE 254 168 124 112 65 aact:AA01953|3end_hypothetical_protein_1320349..1320499_POSITIVE 252 40 12 146 107 aact:AA02734|3end_leucine-responsive_regulatory_protein_1915692..1915842_POSITIVE 251 107 65 71 16 aact:AA01861|3end_phosphomethylpyrimidine_kinase_1252107..1252257_POSITIVE 250 234 191 133 82 aact:AA01718|3end_DNA_polymerase_III,_chi_subunit_1163316..1163466_POSITIVE 250 238 191 83 37 aact:AA01519|3end_conserved_hypothetical_protein_1022539..1022689_POSITIVE 250 218 173 135 85 aact:AA00388|3end_uridine_phosphorylase;_possible_5'-methylthioadenosine_phosphorylase;_purine_nucleoside_phosphorylase_263626..263776_POSITIVE 248 74 34 64 19 aact:AA01818|3end_high-affinity_zinc_uptake_system_membrane_protein_1225078..1225228_POSITIVE 248 245 204 33 4 aact:AA00105|3end_conserved_hypothetical_protein_75609..75759_POSITIVE 245 210 163 122 63 aact:AA01398|3end_KDO_kinase_945691..945841_POSITIVE 245 130 82 60 4 aact:AA00613|3end_lipid-A-disaccharide_synthase_419974..420124_POSITIVE 244 242 202 88 51 aact:AA01351|3end_probable_sulfatase_916393..916543_POSITIVE