Origin IGS: taatgtgctgataaaatttaactacatgccttaataaatactcaaagcctattgaaatcggtcaacaggcttttttatccggatattcattattccatacttgacgtatcatttaattgaataatcttcttagtataaaacaaagccaacgccgggtggaaaatgtacggataatacggtaatggaacacttttttgtagtttaaagacggataaactttattgtgaaaacgatgccattttgtctttgtgatattacaaatttttgaatcgttacacta .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9 tagtgtaacgattcaaaaatttgtaatatcacaaagacaaaatggcatcgttttcacaataaagtttatccgtctttaaactacaaaaaagtgttccattaccgtattatccgtacattttccacccggcgttggctttgttttatactaagaagattattcaattaaatgatacgtcaagtatggaataatgaatatccggataaaaaagcctgttgaccgatttcaataggctttgagtatttattaaggcatgtagttaaattttatcagcacatta Mask Tandem Repeat Region ================================================ taatgtgctgataaaatttaactacatgccttaataaatactcaaagcctattgaaatcggtcaacaggcttttttatccggatattcattattccatacttgacgtatcatttaattgaataatcttcttagtataaaacaaagccaacgccgggtggaaaatgtacggataatacggtaatggaacacttttttgtagtttaaagacggataaactttattgtgaaaacgatgccattttgtctttgtgatattacaaatttttgaatcgttacacta Find is-nt database================================================ Query_seq: AA01607:AA01608|AA01607:AA01608:oligopeptide transporter, periplasmic-binding protein:conserved hypothetical protein:->->:1087173..1087452 280 taatgtgctgataaaatttaactacatgccttaataaatactcaaagcctattgaaatcggtcaacaggcttttttatccggatattcattattccatacttgacgtatcatttaattgaataatcttcttagtataaaacaaagccaacgccgggtggaaaatgtacggataatacggtaatggaacacttttttgtagtttaaagacggataaactttattgtgaaaacgatgccattttgtctttgtgatattacaaatttttgaatcgttacacta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA01607:AA01608|AA01607:AA01608:oligopeptide transporter, periplasmic-binding protein:conserved hypothetical protein:->->:1087173..1087452 280 taatgtgctgataaaatttaactacatgccttaataaatactcaaagcctattgaaatcggtcaacaggcttttttatccggatattcattattccatacttgacgtatcatttaattgaataatcttcttagtataaaacaaagccaacgccgggtggaaaatgtacggataatacggtaatggaacacttttttgtagtttaaagacggataaactttattgtgaaaacgatgccattttgtctttgtgatattacaaatttttgaatcgttacacta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA01607:AA01608|AA01607:AA01608:oligopeptide transporter, periplasmic-binding protein:conserved hypothetical protein:->->:1087173..1087452 280 taatgtgctgataaaatttaactacatgccttaataaatactcaaagcctattgaaatcggtcaacaggcttttttatccggatattcattattccatacttgacgtatcatttaattgaataatcttcttagtataaaacaaagccaacgccgggtggaaaatgtacggataatacggtaatggaacacttttttgtagtttaaagacggataaactttattgtgaaaacgatgccattttgtctttgtgatattacaaatttttgaatcgttacacta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taatgtgctgataaaatttaactacatgccttaataaatactcaaagcctattgaaatcggtcaacaggcttttttatccggatattcattattccatacttgacgtatcatttaattgaataatcttcttagtataaaacaaagccaacgccgggtggaaaatgtacggataatacggtaatggaacacttttttgtagtttaaagacggataaactttattgtgaaaacgatgccattttgtctttgtgatattacaaatttttgaatcgttacacta Predict ORF larger than 30AA ================================================ Protein_Len: 49 Strand: - Start: 116 End: 262 ................................................................................................................... N F L R R L I F C L W R R T S F T R I I R Y H F V K K Y N L S P Y V K N H F R H W K T K T I N C M .................. taatgtgctgataaaatttaactacatgccttaataaatactcaaagcctattgaaatcggtcaacaggcttttttatccggatattcattattccatacttgacgtatcatttaattgaataatcttcttagtataaaacaaagccaacgccgggtggaaaatgtacggataatacggtaatggaacacttttttgtagtttaaagacggataaactttattgtgaaaacgatgccattttgtctttgtgatattacaaatttttgaatcgttacacta 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================================================ taatgtgctgataaaatttaactacatgccttaataaatactcaaagcctattgaaatcggtcaacaggcttttttatccggatattcattattccatacttgacgtatcatttaattgaataatcttcttagtataaaacaaagccaacgccgggtggaaaatgtacggataatacggtaatggaacacttttttgtagtttaaagacggataaactttattgtgaaaacgatgccattttgtctttgtgatattacaaatttttgaatcgttacacta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 80 HP_score: -5.3 Tail_Score: -5.252 Start: 47 End: 70 Full_Region: TAATAAATACTCAAA GCCTATTGA AATCGG TCAACAGGC TTTTTTATCCGGATA ..............................................GCCTATTGAAATCGGTCAACAGGC.................................................................................................................................................................................................................. TransTerm Strand: - Conf: 74 HP_score: -7.5 Tail_Score: -3.84931 Start: 47 End: 70 Full_Region: tatccggataaaaaa gcctgttga ccgatt tcaataggc tttgagtatttatta ..............................................gcctgttgaccgatttcaataggc.................................................................................................................................................................................................................. Find igs database================================================ Query_seq: AA01607:AA01608|AA01607:AA01608:oligopeptide transporter, periplasmic-binding protein:conserved hypothetical protein:->->:1087173..1087452 280 taatgtgctgataaaatttaactacatgccttaataaatactcaaagcctattgaaatcggtcaacaggcttttttatccggatattcattattccatacttgacgtatcatttaattgaataatcttcttagtataaaacaaagccaacgccgggtggaaaatgtacggataatacggtaatggaacacttttttgtagtttaaagacggataaactttattgtgaaaacgatgccattttgtctttgtgatattacaaatttttgaatcgttacacta Intra-Species Hit: Count: 1 Min: 1 Max: 280 Len: 280 Subject: aact_AA01607_AA01608|oligopeptide transporter, periplasmic-binding protein:conserved hypothetical protein|POSITIVE:POSITIVE|[1087173,1087452]|280 HSP 1 e-value: 1.0E-157 bit: 555.0 Len: 280 Query Start:1 Query End:280 Subject Strand: POSITIVE Subject Start: 1 Subject End: 280 taatgtgctgataaaatttaactacatgccttaataaatactcaaagcctattgaaatcggtcaacaggcttttttatccggatattcattattccatacttgacgtatcatttaattgaataatcttcttagtataaaacaaagccaacgccgggtggaaaatgtacggataatacggtaatggaacacttttttgtagtttaaagacggataaactttattgtgaaaacgatgccattttgtctttgtgatattacaaatttttgaatcgttacacta taatgtgctgataaaatttaactacatgccttaataaatactcaaagcctattgaaatcggtcaacaggcttttttatccggatattcattattccatacttgacgtatcatttaattgaataatcttcttagtataaaacaaagccaacgccgggtggaaaatgtacggataatacggtaatggaacacttttttgtagtttaaagacggataaactttattgtgaaaacgatgccattttgtctttgtgatattacaaatttttgaatcgttacacta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUGUGCUGAUAAAAUUUAACUACAUGCCUUAAUAAAUACUCAAAGCCUAUUGAAAUCGGUCAACAGGCUUUUUUAUCCGGAUAUUCAUUAUUCCAUACUUGACGUAUCAUUUAAUUGAAUAAUCUUCUUAGUAUAAAACAAAGCCAACGCCGGGUGGAAAAUGUACGGAUAAUACGGUAAUGGAACACUUUUUUGUAGUUUAAAGACGGAUAAACUUUAUUGUGAAAACGAUGCCAUUUUGUCUUUGUGAUAUUACAAAUUUUUGAAUCGUUACACUA ...((((.((((............((((((.............(((((((.((((......)))).))))))).(((((((......((((.((((..(((((.(((.(((......)))........(((.((.....)).)))...))).)))))))))))))..)))))))...))).)))...((....((((((((.((((((((((.......((((((....))))))....))))))))))....))))))))....)).)))).))))... (-59.40) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGUGUAACGAUUCAAAAAUUUGUAAUAUCACAAAGACAAAAUGGCAUCGUUUUCACAAUAAAGUUUAUCCGUCUUUAAACUACAAAAAAGUGUUCCAUUACCGUAUUAUCCGUACAUUUUCCACCCGGCGUUGGCUUUGUUUUAUACUAAGAAGAUUAUUCAAUUAAAUGAUACGUCAAGUAUGGAAUAAUGAAUAUCCGGAUAAAAAAGCCUGUUGACCGAUUUCAAUAGGCUUUGAGUAUUUAUUAAGGCAUGUAGUUAAAUUUUAUCAGCACAUUA ..(((.(((((((((....(((((......))))).......))).))))))..))).((((((((((...........((((((.....(((......))).((.(((...((((.........((((.((...(.((((((((((((..((..((((((......))))))...)).)))))))))))).)...)))))).....((((((((((((......))))))))))))..))))....))).)).)))))))))))))))).......... (-57.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 339 186 141 227 174 aact:AA00013|5end_hypothetical_protein_6695..6925_POSITIVE 329 187 142 71 17 aact:AA01315|5end_DNA/pantothenate_metabolism_flavoprotein_890091..890321_POSITIVE 326 184 141 230 192 aact:AA02472|5end_conserved_hypothetical_protein_1707631..1707861_POSITIVE 326 195 151 62 10 aact:AA01286|5end_5,10-methylenetetrahydrofolate_dehydrogenase_(bifunctional_protein)_870309..870539_POSITIVE 317 186 150 57 27 aact:AA01827|5end_iron(III)_ABC_transporter,_periplasmic_binding_protein_1230431..1230661_POSITIVE 307 180 133 132 89 aact:AA01432|5end_lysophospholipase_L2_960715..960945_POSITIVE 301 188 142 79 17 aact:AA00650|5end_15_kDa_peptidoglycan-associated_protein_444498..444728_POSITIVE 296 180 145 44 6 aact:AA01451|5end_D-xylulokinase_971935..972165_POSITIVE 296 190 145 54 2 aact:AA00844|5end_cell_division_protein_I;_penicillin_binding_protein_2X_582802..583032_POSITIVE 293 190 147 190 153 aact:AA00155|5end_hypothetical_protein_111747..111977_POSITIVE 291 185 142 217 174 aact:AA01648|5end_alpha-amylase_protein;_1,4-alpha-D-glucan_glucanohydrolase_1115170..1115400_POSITIVE 291 185 142 116 73 aact:AA01646|5end_hypothetical_protein_1115069..1115299_POSITIVE 291 187 141 78 28 aact:AA00290|5end_conserved_hypothetical_protein_201272..201502_POSITIVE 290 187 142 184 131 aact:AA01486|5end_ATP_synthase_F1,_subunit_alpha_998560..998790_POSITIVE 290 190 144 223 180 aact:AA01335|5end_primosomal_protein_N'_901993..902223_POSITIVE 288 189 151 60 15 aact:AA00915|5end_xanthine-guanine_phosphoribosyltransferase_629610..629840_POSITIVE 288 185 150 70 30 aact:AA00158|5end_ampD_signalling_protein_(N-acetylmuramyl-L-alanine_amidase)_112232..112462_POSITIVE 286 189 141 193 143 aact:AA01305|5end_conserved_hypothetical_protein_885598..885828_POSITIVE 286 185 145 202 148 aact:AA00417|5end_outer_membrane_lipoprotein_precursor_(probable_D-methionine-binding_lipoprotein)_283389..283619_POSITIVE 283 185 148 126 77 aact:AA01537|5end_possible_glucokinase_regulatory_protein_1030616..1030846_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 329 187 142 96 42 aact:AA01314|3end_hypothetical_protein_890196..890346_POSITIVE 307 180 133 88 45 aact:AA01431|3end_conserved_hypothetical_protein_(possible_hydrolase)_960751..960901_POSITIVE 296 180 145 61 23 aact:AA01450|3end_hypothetical_protein_972032..972182_POSITIVE 291 185 142 151 108 aact:AA01645|3end_ferric_transport_ABC-related_ATP-binding_protein_1115184..1115334_POSITIVE 291 187 141 73 23 aact:AA00288|3end_conserved_hypothetical_protein_201347..201497_POSITIVE 288 185 150 82 42 aact:AA00157|3end_hypothetical_protein_112324..112474_POSITIVE 286 189 141 95 45 aact:AA01304|3end_penicillin-binding_protein_1A_885580..885730_POSITIVE 282 190 154 49 11 aact:AA00659|3end_heat_shock_protein_453027..453177_POSITIVE 272 187 141 96 52 aact:AA01059|3end_orotate_phosphoribosyltransferase_735773..735923_POSITIVE 271 186 145 142 99 aact:AA00724|3end_hypothetical_protein_498036..498186_POSITIVE 268 190 143 124 77 aact:AA02566|3end_PTS_system,_IIC_component_1788179..1788329_POSITIVE 268 179 145 71 43 aact:AA01422|3end_cell_division_protein_E,_ABC_system_ATP-binding_protein_956736..956886_POSITIVE 265 79 38 105 67 aact:AA02969|3end_beta_tyrosinase_(tyrosine_phenol-lyase)_2076417..2076567_POSITIVE 263 188 146 56 10 aact:AA01418|3end_conserved_hypothetical_protein_954306..954456_POSITIVE 262 187 141 82 16 aact:AA00954|3end_uroporphyrinogen_III_synthase_661070..661220_POSITIVE 260 190 142 150 105 aact:AA02684|3end_hydrogenase_4_membrane_subunit_1871612..1871762_POSITIVE 260 160 140 34 16 aact:AA01274|3end_hypothetical_protein_864832..864982_POSITIVE 260 186 145 148 100 aact:AA00426|3end_conserved_hypothetical_protein_288205..288355_POSITIVE 259 169 127 120 82 aact:AA01840|3end_conserved_hypothetical_protein_1237554..1237704_POSITIVE 258 185 143 90 42 aact:AA01054|3end_conserved_hypothetical_protein_733940..734090_POSITIVE