Origin IGS: aattctaaatgtttaagtaatacaatatttaatgagaatagacccacaataatctgtcaaaatagaatagtcttacacgaagactatataggtctatatgtttcttttttctacgtggtcaaaattaaacattatttcccataagaacaaactttcgtactatcattttatattatttaacacatgaatcctattttccatcagtgtcaaacatcatagaataaaaaagcgagtaacttcgtatgagaagttactcgctatatttatttgtttaaaactttatttcagcttgataaaagatta .........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 taatcttttatcaagctgaaataaagttttaaacaaataaatatagcgagtaacttctcatacgaagttactcgcttttttattctatgatgtttgacactgatggaaaataggattcatgtgttaaataatataaaatgatagtacgaaagtttgttcttatgggaaataatgtttaattttgaccacgtagaaaaaagaaacatatagacctatatagtcttcgtgtaagactattctattttgacagattattgtgggtctattctcattaaatattgtattacttaaacatttagaatt Mask Tandem Repeat Region ================================================ aattctaaatgtttaagtaatacaatatttaatgagaatagacccacaataatctgtcaaaatagaatagtcttacacgaagactatataggtctatatgtttcttttttctacgtggtcaaaattaaacattatttcccataagaacaaactttcgtactatcattttatattatttaacacatgaatcctattttccatcagtgtcaaacatcatagaataaaaaagcgagtaacttcgtatgagaagttactcgctatatttatttgtttaaaactttatttcagcttgataaaagatta Find is-nt database================================================ Query_seq: PI1774:PI1775|PI1774:PI1775:hypothetical protein:hypothetical protein:->->:1707092..1707394 303 aattctaaatgtttaagtaatacaatatttaatgagaatagacccacaataatctgtcaaaatagaatagtcttacacgaagactatataggtctatatgtttcttttttctacgtggtcaaaattaaacattatttcccataagaacaaactttcgtactatcattttatattatttaacacatgaatcctattttccatcagtgtcaaacatcatagaataaaaaagcgagtaacttcgtatgagaagttactcgctatatttatttgtttaaaactttatttcagcttgataaaagatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1774:PI1775|PI1774:PI1775:hypothetical protein:hypothetical protein:->->:1707092..1707394 303 aattctaaatgtttaagtaatacaatatttaatgagaatagacccacaataatctgtcaaaatagaatagtcttacacgaagactatataggtctatatgtttcttttttctacgtggtcaaaattaaacattatttcccataagaacaaactttcgtactatcattttatattatttaacacatgaatcctattttccatcagtgtcaaacatcatagaataaaaaagcgagtaacttcgtatgagaagttactcgctatatttatttgtttaaaactttatttcagcttgataaaagatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1774:PI1775|PI1774:PI1775:hypothetical protein:hypothetical protein:->->:1707092..1707394 303 aattctaaatgtttaagtaatacaatatttaatgagaatagacccacaataatctgtcaaaatagaatagtcttacacgaagactatataggtctatatgtttcttttttctacgtggtcaaaattaaacattatttcccataagaacaaactttcgtactatcattttatattatttaacacatgaatcctattttccatcagtgtcaaacatcatagaataaaaaagcgagtaacttcgtatgagaagttactcgctatatttatttgtttaaaactttatttcagcttgataaaagatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aattctaaatgtttaagtaatacaatatttaatgagaatagacccacaataatctgtcaaaatagaatagtcttacacgaagactatataggtctatatgtttcttttttctacgtggtcaaaattaaacattatttcccataagaacaaactttcgtactatcattttatattatttaacacatgaatcctattttccatcagtgtcaaacatcatagaataaaaaagcgagtaacttcgtatgagaagttactcgctatatttatttgtttaaaactttatttcagcttgataaaagatta Predict ORF larger than 30AA ================================================ Protein_Len: 39 Strand: + Start: 25 End: 141 ........................ M F N E N R P T I I C Q N R I V L H E D Y I G L Y V S F F Y V V K I K H Y F P .................................................................................................................................................................. Protein_Len: 38 Strand: + Start: 188 End: 301 ........................................................................................................................................................................................... M L F S I S V K H H R I K K R V T S Y E K L L A I F I C L K L Y F S L I K D .. aattctaaatgtttaagtaatacaatatttaatgagaatagacccacaataatctgtcaaaatagaatagtcttacacgaagactatataggtctatatgtttcttttttctacgtggtcaaaattaaacattatttcccataagaacaaactttcgtactatcattttatattatttaacacatgaatcctattttccatcagtgtcaaacatcatagaataaaaaagcgagtaacttcgtatgagaagttactcgctatatttatttgtttaaaactttatttcagcttgataaaagatta 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: 84 Start: 32 End: 61 ...............................TTTGACAGATTATTGTGGGTCTATTCTCAT.................................................................................................................................................................................................................................................. Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ aattctaaatgtttaagtaatacaatatttaatgagaatagacccacaataatctgtcaaaatagaatagtcttacacgaagactatataggtctatatgtttcttttttctacgtggtcaaaattaaacattatttcccataagaacaaactttcgtactatcattttatattatttaacacatgaatcctattttccatcagtgtcaaacatcatagaataaaaaagcgagtaacttcgtatgagaagttactcgctatatttatttgtttaaaactttatttcagcttgataaaagatta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 95 HP_score: -11.1 Tail_Score: -4.4448 Start: 222 End: 266 Full_Region: TCAAACATCATAGAA TAAAAAAGCGAGTAACTTC GTATGA GAAGTTACTCGCTATATTTA TTTGTTTAAAACTTT .............................................................................................................................................................................................................................TAAAAAAGCGAGTAACTTCGTATGAGAAGTTACTCGCTATATTTA..................................... TransTerm Strand: + Conf: 100 HP_score: -10.0 Tail_Score: -4.78326 Start: 225 End: 262 Full_Region: AACATCATAGAATAA AAAAGCGAGTAACTTC GTATGA GAAGTTACTCGCTATA TTTATTTGTTTAAAA ................................................................................................................................................................................................................................AAAAGCGAGTAACTTCGTATGAGAAGTTACTCGCTATA......................................... TransTerm Strand: + Conf: 100 HP_score: -12.6 Tail_Score: -3.99693 Start: 227 End: 260 Full_Region: CATCATAGAATAAAA AAGCGAGTAACTTC GTATGA GAAGTTACTCGCTA TATTTATTTGTTTAA ..................................................................................................................................................................................................................................AAGCGAGTAACTTCGTATGAGAAGTTACTCGCTA........................................... TransTerm Strand: - Conf: 100 HP_score: -15.2 Tail_Score: -5.60689 Start: 229 End: 258 Full_Region: aaacaaataaatata gcgagtaacttc tcatac gaagttactcgc ttttttattctatga ....................................................................................................................................................................................................................................gcgagtaacttctcatacgaagttactcgc............................................. Find igs database================================================ Query_seq: PI1774:PI1775|PI1774:PI1775:hypothetical protein:hypothetical protein:->->:1707092..1707394 303 aattctaaatgtttaagtaatacaatatttaatgagaatagacccacaataatctgtcaaaatagaatagtcttacacgaagactatataggtctatatgtttcttttttctacgtggtcaaaattaaacattatttcccataagaacaaactttcgtactatcattttatattatttaacacatgaatcctattttccatcagtgtcaaacatcatagaataaaaaagcgagtaacttcgtatgagaagttactcgctatatttatttgtttaaaactttatttcagcttgataaaagatta Intra-Species Hit: Count: 1 Min: 1 Max: 303 Len: 303 Subject: pint_PI1774_PI1775|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[1707092,1707394]|303 HSP 1 e-value: 1.0E-171 bit: 601.0 Len: 303 Query Start:1 Query End:303 Subject Strand: POSITIVE Subject Start: 1 Subject End: 303 aattctaaatgtttaagtaatacaatatttaatgagaatagacccacaataatctgtcaaaatagaatagtcttacacgaagactatataggtctatatgtttcttttttctacgtggtcaaaattaaacattatttcccataagaacaaactttcgtactatcattttatattatttaacacatgaatcctattttccatcagtgtcaaacatcatagaataaaaaagcgagtaacttcgtatgagaagttactcgctatatttatttgtttaaaactttatttcagcttgataaaagatta aattctaaatgtttaagtaatacaatatttaatgagaatagacccacaataatctgtcaaaatagaatagtcttacacgaagactatataggtctatatgtttcttttttctacgtggtcaaaattaaacattatttcccataagaacaaactttcgtactatcattttatattatttaacacatgaatcctattttccatcagtgtcaaacatcatagaataaaaaagcgagtaacttcgtatgagaagttactcgctatatttatttgtttaaaactttatttcagcttgataaaagatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUUCUAAAUGUUUAAGUAAUACAAUAUUUAAUGAGAAUAGACCCACAAUAAUCUGUCAAAAUAGAAUAGUCUUACACGAAGACUAUAUAGGUCUAUAUGUUUCUUUUUUCUACGUGGUCAAAAUUAAACAUUAUUUCCCAUAAGAACAAACUUUCGUACUAUCAUUUUAUAUUAUUUAACACAUGAAUCCUAUUUUCCAUCAGUGUCAAACAUCAUAGAAUAAAAAAGCGAGUAACUUCGUAUGAGAAGUUACUCGCUAUAUUUAUUUGUUUAAAACUUUAUUUCAGCUUGAUAAAAGAUUA .((((((.((((((.........(((((..(((((..(((((((........(((((....)))))((((((((.....))))))))...)))))))..((((.(((((.....((((...((((........)))).))))))))).))))..........)))))..))))).....((((.(((.............))))))).))))))..)))))).....(((((((((((((......)))))))))))))...((((((.(((.(((......))).)))..))))))...... (-62.22) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUCUUUUAUCAAGCUGAAAUAAAGUUUUAAACAAAUAAAUAUAGCGAGUAACUUCUCAUACGAAGUUACUCGCUUUUUUAUUCUAUGAUGUUUGACACUGAUGGAAAAUAGGAUUCAUGUGUUAAAUAAUAUAAAAUGAUAGUACGAAAGUUUGUUCUUAUGGGAAAUAAUGUUUAAUUUUGACCACGUAGAAAAAAGAAACAUAUAGACCUAUAUAGUCUUCGUGUAAGACUAUUCUAUUUUGACAGAUUAUUGUGGGUCUAUUCUCAUUAAAUAUUGUAUUACUUAAACAUUUAGAAUU .....((((((((.(((.......))).(((((((((((((...(((((((((((((......)))))))))))))..))))))......)))))))...)))))))).....(((((..(((((((.((((((((...(((((.((....)))))))...(((((((...((((((..((((...........))))..)))))).(((((((((((((((((((....(((....)))....))).)))))).)))))))))))))))))......)))))))).)).)))))...))))) (-72.90) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 291 80 36 181 137 pint:PI1431|5end_conserved_hypothetical_protein_1352079..1352309_POSITIVE 277 260 212 51 5 pint:PI0953|5end_hypothetical_protein_885119..885349_POSITIVE 270 242 203 184 151 pint:PI2109|5end_surface_antigen_BspA_2060553..2060783_POSITIVE 267 269 228 151 107 pint:PI0558|5end_probable_transcriptional_regulator,_TetR_family_507036..507266_POSITIVE 255 265 226 115 74 pint:PI2105|5end_hypothetical_protein_2059357..2059587_POSITIVE 254 257 230 33 4 pint:PI1896|5end_hypothetical_protein_1840854..1841084_POSITIVE 242 259 211 150 101 pint:PI0855|5end_hypothetical_protein_789094..789324_POSITIVE 236 245 205 150 103 pint:PI0275|5end_hypothetical_protein_263138..263368_POSITIVE 232 261 229 58 18 pint:PI0784|5end_possible_amidase_enhancer_precursor_721892..722122_POSITIVE 230 123 81 58 13 pint:PI1734|5end_possible_carboxyl-terminal_protease-related_protein_1652409..1652639_POSITIVE 229 221 183 230 191 pint:PI0128|5end_dipeptidase,_pathogenicity_island-encoded_protein_D_120532..120762_POSITIVE 225 279 232 99 50 pint:PI2027|5end_arginine_decarboxylase_1980161..1980391_POSITIVE 222 258 228 66 34 pint:PI0473|5end_30S_ribosomal_protein_S14_438634..438864_POSITIVE 217 241 203 136 94 pint:PI0386|5end_integrase_354369..354599_POSITIVE 216 259 228 137 98 pint:PI1820|5end_hypothetical_protein_1759962..1760192_POSITIVE 216 259 216 190 151 pint:PI1239|5end_possible_peptidase_C1-like_family_(aminopeptidase_C)_1163498..1163728_POSITIVE 212 119 71 187 122 pint:PI0713|5end_hypothetical_protein_650294..650524_POSITIVE 211 290 241 84 20 pint:PI1390|5end_hypothetical_protein_1311154..1311384_POSITIVE 211 104 70 78 49 pint:PI0100|5end_LPS_biosynthesis_protein_(lipopolysaccharide_biosynthesis_protein)_95843..96073_POSITIVE 208 273 236 45 10 pint:PI1530|5end_conserved_hypothetical_protein_1450439..1450669_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 255 265 226 68 27 pint:PI2104|3end_carboxyl-terminal_protease_2059390..2059540_POSITIVE 241 259 216 58 16 pint:PI0059|3end_peptide_chain_release_factor_RF-2_58171..58321_POSITIVE 236 245 205 119 72 pint:PI0274|3end_conserved_hypothetical_protein_263187..263337_POSITIVE 229 299 255 57 15 pint:PI0132|3end_hypothetical_protein_124519..124669_POSITIVE 222 258 228 57 25 pint:PI0472|3end_50S_ribosomal_protein_L5_438705..438855_POSITIVE 217 241 203 136 94 pint:PI0385|3end_hypothetical_protein_354449..354599_POSITIVE 216 259 216 50 11 pint:PI1238|3end_single-strand_DNA-specific_exonuclease_1163438..1163588_POSITIVE 211 260 213 130 80 pint:PI1909|3end_DNA_gyrase,_B_subunit_1855270..1855420_POSITIVE 207 103 65 72 28 pint:PI0754|3end_possible_outer_membrane_receptor_686424..686574_POSITIVE 206 115 71 145 102 pint:PI1462|3end_hypothetical_protein_1385383..1385533_POSITIVE 206 80 31 65 13 pint:PI0027|3end_aminopeptidase_C_31756..31906_POSITIVE 203 296 252 151 101 pint:PI0714|3end_conserved_hypothetical_protein_652147..652297_POSITIVE 202 168 127 75 26 pint:PI0536|3end_hypothetical_protein_492623..492773_POSITIVE 200 155 111 64 22 pint:PI1361|3end_CTP_synthase_(UTP-ammonia_lyase)_1279893..1280043_POSITIVE 198 149 113 92 54 pint:PI1108|3end_conserved_hypothetical_protein_1032693..1032843_POSITIVE 197 249 212 57 18 pint:PI1137|3end_hypothetical_protein_1064618..1064768_POSITIVE 193 265 221 95 40 pint:PI1785|3end_conserved_hypothetical_protein_1718104..1718254_POSITIVE 193 267 221 86 27 pint:PI1379|3end_hypothetical_protein_1302292..1302442_POSITIVE 193 158 118 65 23 pint:PI1023|3end_hypothetical_protein_940195..940345_POSITIVE 193 117 73 93 51 pint:PI0811|3end_protease/hemagglutinin_PrtT,_streptopain_family_749937..750087_POSITIVE