Origin IGS: tagagaagctattaaaaagaacaaggcagataaagtaatctttatctgccttgttcttatataatccatagagcttaatgatagttctttacacagtatgtgtttttgtggaaaatccccaccaacacagtgctta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taagcactgtgttggtggggattttccacaaaaacacatactgtgtaaagaactatcattaagctctatggattatataagaacaaggcagataaagattactttatctgccttgttctttttaatagcttctcta Mask Tandem Repeat Region ================================================ tagagaagctattaaaaagaacaaggcagataaagtaatctttatctgccttgttcttatataatccatagagcttaatgatagttctttacacagtatgtgtttttgtggaaaatccccaccaacacagtgctta Find is-nt database================================================ Query_seq: PI0104:PI0105|PI0104:PI0105:hypothetical protein:possible sulfatase:->->:99407..99542 136 tagagaagctattaaaaagaacaaggcagataaagtaatctttatctgccttgttcttatataatccatagagcttaatgatagttctttacacagtatgtgtttttgtggaaaatccccaccaacacagtgctta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0104:PI0105|PI0104:PI0105:hypothetical protein:possible sulfatase:->->:99407..99542 136 tagagaagctattaaaaagaacaaggcagataaagtaatctttatctgccttgttcttatataatccatagagcttaatgatagttctttacacagtatgtgtttttgtggaaaatccccaccaacacagtgctta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0104:PI0105|PI0104:PI0105:hypothetical protein:possible sulfatase:->->:99407..99542 136 tagagaagctattaaaaagaacaaggcagataaagtaatctttatctgccttgttcttatataatccatagagcttaatgatagttctttacacagtatgtgtttttgtggaaaatccccaccaacacagtgctta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tagagaagctattaaaaagaacaaggcagataaagtaatctttatctgccttgttcttatataatccatagagcttaatgatagttctttacacagtatgtgtttttgtggaaaatccccaccaacacagtgctta Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: - Start: 1 End: 99 L S A I L F F L A S L T I K I Q R T R I Y D M S S L S L E K C L M ..................................... tagagaagctattaaaaagaacaaggcagataaagtaatctttatctgccttgttcttatataatccatagagcttaatgatagttctttacacagtatgtgtttttgtggaaaatccccaccaacacagtgctta 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: 87 End: 116 ......................................................................................CTTTACACAGTATGTGTTTTTGTGGAAAAT.................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ tagagaagctattaaaaagaacaaggcagataaagtaatctttatctgccttgttcttatataatccatagagcttaatgatagttctttacacagtatgtgtttttgtggaaaatccccaccaacacagtgctta Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 100 HP_score: -23.1 Tail_Score: -4.77759 Start: 19 End: 56 Full_Region: ctatggattatataa gaacaaggcagataaag atta ctttatctgccttgttc tttttaatagcttct ..................gaacaaggcagataaagattactttatctgccttgttc................................................................................ TransTerm Strand: + Conf: 72 HP_score: -5.4 Tail_Score: -4.83615 Start: 92 End: 102 Full_Region: AATGATAGTTCTTTA CACA GTA TGTG TTTTTGTGGAAAATC ...........................................................................................CACAGTATGTG.................................. Find igs database================================================ Query_seq: PI0104:PI0105|PI0104:PI0105:hypothetical protein:possible sulfatase:->->:99407..99542 136 tagagaagctattaaaaagaacaaggcagataaagtaatctttatctgccttgttcttatataatccatagagcttaatgatagttctttacacagtatgtgtttttgtggaaaatccccaccaacacagtgctta Intra-Species Hit: Count: 1 Min: 1 Max: 136 Len: 136 Subject: pint_PI0104_PI0105|hypothetical protein:possible sulfatase|POSITIVE:POSITIVE|[99407,99542]|136 HSP 1 e-value: 1.0E-71 bit: 270.0 Len: 136 Query Start:1 Query End:136 Subject Strand: POSITIVE Subject Start: 1 Subject End: 136 tagagaagctattaaaaagaacaaggcagataaagtaatctttatctgccttgttcttatataatccatagagcttaatgatagttctttacacagtatgtgtttttgtggaaaatccccaccaacacagtgctta tagagaagctattaaaaagaacaaggcagataaagtaatctttatctgccttgttcttatataatccatagagcttaatgatagttctttacacagtatgtgtttttgtggaaaatccccaccaacacagtgctta HSP 2 e-value: 5.0E-6 bit: 52.0 Len: 42 Query Start:17 Query End:58 Subject Strand: NEGATIVE Subject Start: 17 Subject End: 58 ................aagaacaaggcagataaagtaatctttatctgccttgttctt.............................................................................. ................aagaacaaggcagataaagattactttatctgccttgttctt.............................................................................. Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGAGAAGCUAUUAAAAAGAACAAGGCAGAUAAAGUAAUCUUUAUCUGCCUUGUUCUUAUAUAAUCCAUAGAGCUUAAUGAUAGUUCUUUACACAGUAUGUGUUUUUGUGGAAAAUCCCCACCAACACAGUGCUUA (((((((.((((((..(((((((((((((((((((....)))))))))))))))))))......((....))......)))))))))))))...((((((((((...((((.......)))).)))))).)))).. (-49.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAGCACUGUGUUGGUGGGGAUUUUCCACAAAAACACAUACUGUGUAAAGAACUAUCAUUAAGCUCUAUGGAUUAUAUAAGAACAAGGCAGAUAAAGAUUACUUUAUCUGCCUUGUUCUUUUUAAUAGCUUCUCUA ...((((((((((.(((((.....)))))...))))))....))))..............(((((......((((...(((((((((((((((((((....)))))))))))))))))))..)))))))))..... (-47.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 306 80 38 95 57 pint:PI1701|5end_sensor_histidine_kinase_1619312..1619542_POSITIVE 286 87 45 210 164 pint:PI0270|5end_conserved_hypothetical_protein_261388..261618_POSITIVE 266 130 83 61 15 pint:PI1826|5end_ATP-dependent_DNA_helicase_1765650..1765880_POSITIVE 248 97 68 83 56 pint:PI1284|5end_ATP_synthase,_delta_subunit_1199800..1200030_POSITIVE 247 62 24 143 104 pint:PI0218|5end_conserved_hypothetical_protein_210770..211000_POSITIVE 242 110 68 144 100 pint:PI1076|5end_hypothetical_protein_998893..999123_POSITIVE 241 60 23 166 128 pint:PI1569|5end_hypothetical_protein_1492432..1492662_POSITIVE 229 74 35 221 183 pint:PI0027|5end_aminopeptidase_C_30468..30698_POSITIVE 228 122 84 97 64 pint:PI1547|5end_hypothetical_protein_1465808..1466038_POSITIVE 228 60 18 91 45 pint:PI0268|5end_lysozyme-related_protein_259198..259428_POSITIVE 225 130 89 186 129 pint:PI2073|5end_mobilization_protein_2031995..2032225_POSITIVE 225 50 8 228 184 pint:PI0161|5end_possible_TonB_receptor_153364..153594_POSITIVE 224 55 23 149 120 pint:PI1270|5end_probable_dipeptidyl_peptidase_1188761..1188991_POSITIVE 224 122 98 43 18 pint:PI0019|5end_conserved_hypothetical_protein_23742..23972_POSITIVE 223 115 71 109 62 pint:PI1869|5end_hypothetical_protein_1815131..1815361_POSITIVE 223 87 53 145 114 pint:PI1525|5end_CDP-diacylglycerol--serine_O-phosphatidyltransferase_1446758..1446988_POSITIVE 222 90 44 153 113 pint:PI0504|5end_hypothetical_protein_464459..464689_POSITIVE 217 67 22 71 28 pint:PI1549|5end_conserved_hypothetical_protein_1467021..1467251_POSITIVE 216 56 18 200 159 pint:PI0449|5end_hypothetical_protein_422952..423182_POSITIVE 215 55 11 87 35 pint:PI1055|5end_aspartokinase_974909..975139_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 558 58 17 74 33 pint:PI0104|3end_hypothetical_protein_99346..99496_POSITIVE 248 97 68 67 40 pint:PI1283|3end_ATP_synthase,_alpha_subunit_1199864..1200014_POSITIVE 247 62 24 87 48 pint:PI0217|3end_conserved_hypothetical_protein;_possible_lipoprotein_210794..210944_POSITIVE 244 57 16 59 17 pint:PI0160|3end_conserved_hypothetical_protein_153268..153418_POSITIVE 231 130 93 49 10 pint:PI0754|3end_possible_outer_membrane_receptor_686424..686574_POSITIVE 228 60 18 104 58 pint:PI0267|3end_conjugative_transposon_protein,_TraQ_259291..259441_POSITIVE 224 55 23 89 60 pint:PI1269|3end_conserved_hypothetical_protein;_possible_peptidase_1188781..1188931_POSITIVE 222 69 25 64 25 pint:PI0042|3end_hypothetical_protein_43444..43594_POSITIVE 218 56 25 59 13 pint:PI0028|3end_aminopeptidase_32727..32877_POSITIVE 217 59 14 60 15 pint:PI0618|3end_acyl-CoA_dehydrogenase_family_protein_569213..569363_POSITIVE 217 50 2 60 19 pint:PI0145|3end_secDF_export_membrane_protein_139724..139874_POSITIVE 215 55 11 76 24 pint:PI1054|3end_conserved_hypothetical_protein_974978..975128_POSITIVE 212 106 65 145 102 pint:PI0418|3end_hypothetical_protein_386856..387006_POSITIVE 212 106 65 117 74 pint:PI0420|3end_hypothetical_protein_386828..386978_POSITIVE 211 57 17 117 76 pint:PI0535|3end_hypothetical_protein_489779..489929_POSITIVE 210 63 23 56 10 pint:PI0180|3end_TonB_protein_173430..173580_POSITIVE 209 53 24 46 12 pint:PI0117|3end_ribonuclease_HI_111314..111464_POSITIVE 208 68 23 79 33 pint:PI2065|3end_hypothetical_protein_2027253..2027403_POSITIVE 204 57 34 110 80 pint:PI1517|3end_AcrB/AcrD_family_multidrug_resistance_protein_1438973..1439123_POSITIVE 203 70 23 77 25 pint:PI1027|3end_hypothetical_protein_943399..943549_POSITIVE