Origin IGS: aaatcacattttaatcgaaaataatcacgataaaacttgcgttattcgtgagaaatcactatctttgcaacgtgttccaatggaacgtgcggccaaaaatacgaaaaatagccgagattagcaaatattaagtcttaaaagtaagtgagatt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aatctcacttacttttaagacttaatatttgctaatctcggctatttttcgtatttttggccgcacgttccattggaacacgttgcaaagatagtgatttctcacgaataacgcaagttttatcgtgattattttcgattaaaatgtgattt Mask Tandem Repeat Region ================================================ aaatcacattttaatcgaaaataatcacgataaaacttgcgttattcgtgagaaatcactatctttgcaacgtgttccaatggaacgtgcggccaaaaatacgaaaaatagccgagattagcaaatattaagtcttaaaagtaagtgagatt Find is-nt database================================================ Query_seq: PI0328:PI0329|PI0328:PI0329:conserved hypothetical protein:hypothetical protein:->->:310054..310205 152 aaatcacattttaatcgaaaataatcacgataaaacttgcgttattcgtgagaaatcactatctttgcaacgtgttccaatggaacgtgcggccaaaaatacgaaaaatagccgagattagcaaatattaagtcttaaaagtaagtgagatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0328:PI0329|PI0328:PI0329:conserved hypothetical protein:hypothetical protein:->->:310054..310205 152 aaatcacattttaatcgaaaataatcacgataaaacttgcgttattcgtgagaaatcactatctttgcaacgtgttccaatggaacgtgcggccaaaaatacgaaaaatagccgagattagcaaatattaagtcttaaaagtaagtgagatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0328:PI0329|PI0328:PI0329:conserved hypothetical protein:hypothetical protein:->->:310054..310205 152 aaatcacattttaatcgaaaataatcacgataaaacttgcgttattcgtgagaaatcactatctttgcaacgtgttccaatggaacgtgcggccaaaaatacgaaaaatagccgagattagcaaatattaagtcttaaaagtaagtgagatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aaatcacattttaatcgaaaataatcacgataaaacttgcgttattcgtgagaaatcactatctttgcaacgtgttccaatggaacgtgcggccaaaaatacgaaaaatagccgagattagcaaatattaagtcttaaaagtaagtgagatt Predict ORF larger than 30AA ================================================ Protein_Len: 37 Strand: + Start: 8 End: 118 ....... M L I E N N H D K T C V I R E K S L S L Q R V P M E R A A K N T K N S R D .................................. Protein_Len: 36 Strand: + Start: 21 End: 128 .................... M I T I K L A L F V R N H Y L C N V F Q W N V R P K I R K I A E I S K Y ........................ aaatcacattttaatcgaaaataatcacgataaaacttgcgttattcgtgagaaatcactatctttgcaacgtgttccaatggaacgtgcggccaaaaatacgaaaaatagccgagattagcaaatattaagtcttaaaagtaagtgagatt 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: 82 Start: 96 End: 125 ...............................................................................................TTTGCTAATCTCGGCTATTTTTCGTATTTT........................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ aaatcacattttaatcgaaaataatcacgataaaacttgcgttattcgtgagaaatcactatctttgcaacgtgttccaatggaacgtgcggccaaaaatacgaaaaatagccgagattagcaaatattaagtcttaaaagtaagtgagatt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0328:PI0329|PI0328:PI0329:conserved hypothetical protein:hypothetical protein:->->:310054..310205 152 aaatcacattttaatcgaaaataatcacgataaaacttgcgttattcgtgagaaatcactatctttgcaacgtgttccaatggaacgtgcggccaaaaatacgaaaaatagccgagattagcaaatattaagtcttaaaagtaagtgagatt Intra-Species Hit: Count: 1 Min: 1 Max: 152 Len: 152 Subject: pint_PI0328_PI0329|conserved hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[310054,310205]|152 HSP 1 e-value: 3.0E-81 bit: 301.0 Len: 152 Query Start:1 Query End:152 Subject Strand: POSITIVE Subject Start: 1 Subject End: 152 aaatcacattttaatcgaaaataatcacgataaaacttgcgttattcgtgagaaatcactatctttgcaacgtgttccaatggaacgtgcggccaaaaatacgaaaaatagccgagattagcaaatattaagtcttaaaagtaagtgagatt aaatcacattttaatcgaaaataatcacgataaaacttgcgttattcgtgagaaatcactatctttgcaacgtgttccaatggaacgtgcggccaaaaatacgaaaaatagccgagattagcaaatattaagtcttaaaagtaagtgagatt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAUCACAUUUUAAUCGAAAAUAAUCACGAUAAAACUUGCGUUAUUCGUGAGAAAUCACUAUCUUUGCAACGUGUUCCAAUGGAACGUGCGGCCAAAAAUACGAAAAAUAGCCGAGAUUAGCAAAUAUUAAGUCUUAAAAGUAAGUGAGAUU .((((........((((..........))))...((((((.......((((....))))....(((((..((((((((...))))))))((((.................))))......)))))...............))))))..)))) (-28.73) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUCUCACUUACUUUUAAGACUUAAUAUUUGCUAAUCUCGGCUAUUUUUCGUAUUUUUGGCCGCACGUUCCAUUGGAACACGUUGCAAAGAUAGUGAUUUCUCACGAAUAACGCAAGUUUUAUCGUGAUUAUUUUCGAUUAAAAUGUGAUUU ....((((....((((((.........(((((......((((((.............))))))...(((((...))))).....)))))((.(((((....((((((..(((....)))...))))))))))).))..)))))).))))... (-33.82) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 321 124 84 76 35 pint:PI1139|5end_endopeptidase,_endothelin-converting_enzyme_1065216..1065446_POSITIVE 305 93 60 49 8 pint:PI0301|5end_probable_transposase_285672..285902_POSITIVE 302 94 62 208 164 pint:PI0251|5end_hypothetical_protein_247551..247781_POSITIVE 290 95 62 222 181 pint:PI0128|5end_dipeptidase,_pathogenicity_island-encoded_protein_D_120532..120762_POSITIVE 286 79 35 82 29 pint:PI0334|5end_hypothetical_protein_313234..313464_POSITIVE 280 95 55 215 170 pint:PI0404|5end_integrase_371295..371525_POSITIVE 280 118 72 48 8 pint:PI0250|5end_hypothetical_protein_246946..247176_POSITIVE 274 68 28 45 5 pint:PI0770|5end_hypothetical_protein_706170..706400_POSITIVE 270 94 56 191 157 pint:PI1828|5end_peptidase,_M23/M37_family,_C-terminal_1768419..1768649_POSITIVE 263 120 71 159 109 pint:PI1310|5end_LysM_domain_protein_1227262..1227492_POSITIVE 261 93 54 61 16 pint:PI0684|5end_coproporphyrinogen_III_oxidase_619357..619587_POSITIVE 261 114 71 178 138 pint:PI0454|5end_hypothetical_protein_426653..426883_POSITIVE 260 102 65 217 177 pint:PI0817|5end_glycosyl_transferase,_group_1_family_protein_756861..757091_POSITIVE 256 103 65 94 53 pint:PI1687|5end_ribosome_recycling_factor_1602307..1602537_POSITIVE 256 115 71 180 117 pint:PI0909|5end_possible_mutT/NUDIX_family_protein_837526..837756_POSITIVE 255 93 64 204 178 pint:PI1295|5end_hypothetical_protein_1208636..1208866_POSITIVE 255 93 64 58 32 pint:PI1294|5end_hypothetical_protein_1208490..1208720_POSITIVE 255 90 41 122 66 pint:PI0339|5end_hypothetical_protein_315735..315965_POSITIVE 254 103 70 70 30 pint:PI0438|5end_elongation_factor_Tu_409037..409267_POSITIVE 251 92 54 172 137 pint:PI1475|5end_possible_short_chain_dehydrogenase_1397142..1397372_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 305 93 60 58 17 pint:PI0300|3end_transposase_285761..285911_POSITIVE 280 118 72 48 8 pint:PI0249|3end_conserved_hypothetical_protein_247026..247176_POSITIVE 274 68 28 149 109 pint:PI0770|3end_hypothetical_protein_706354..706504_POSITIVE 253 95 57 65 26 pint:PI0857|3end_hypothetical_protein_790986..791136_POSITIVE 252 90 41 148 87 pint:PI0935|3end_collagenase,_protease_868320..868470_POSITIVE 247 118 71 86 32 pint:PI0025|3end_two_component_system_sensor_histidine_kinase_29823..29973_POSITIVE 239 114 72 55 10 pint:PI0719|3end_conserved_hypothetical_protein_654010..654160_POSITIVE 237 94 62 104 60 pint:PI1663|3end_hypothetical_protein_1577347..1577497_POSITIVE 237 95 51 77 28 pint:PI0042|3end_hypothetical_protein_43444..43594_POSITIVE 235 127 81 79 24 pint:PI0430|3end_periplasmic_protease;_MdsD_protein_403101..403251_POSITIVE 235 125 88 119 81 pint:PI0283|3end_Zn-dependent_peptidase_268881..269031_POSITIVE 233 85 59 34 12 pint:PI0592|3end_DNA_mismatch_repair_protein_542611..542761_POSITIVE 232 99 51 50 4 pint:PI0844|3end_cytidine/deoxycytidylate_deaminase_(dCMP_deaminase)_778316..778466_POSITIVE 232 93 65 109 83 pint:PI0115|3end_hypothetical_protein_108669..108819_POSITIVE 232 130 81 107 54 pint:PI0060|3end_long-chain-fatty-acid--CoA_ligase_(acyl-CoA_synthetase)_60166..60316_POSITIVE 230 96 56 146 110 pint:PI2147|3end_GTP-binding_protein_2094407..2094557_POSITIVE 230 114 71 136 102 pint:PI1704|3end_50S_ribosomal_protein_L32_1621680..1621830_POSITIVE 230 97 59 62 31 pint:PI1218|3end_UDP-3-O-acyl-N-acetylglucosamine_deacetylase_1138597..1138747_POSITIVE 228 94 57 124 87 pint:PI1395|3end_hypothetical_protein_1314407..1314557_POSITIVE 228 80 39 58 23 pint:PI0838|3end_DNA_replication_and_repair_protein_773927..774077_POSITIVE