Origin IGS: ctgccgtactcctttcttgaactcataaatatgattcaataagaccttcatatcggttgccattccttccattatatatacaaatgcttagatgctatctaaattttatta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taataaaatttagatagcatctaagcatttgtatatataatggaaggaatggcaaccgatatgaaggtcttattgaatcatatttatgagttcaagaaaggagtacggcag Mask Tandem Repeat Region ================================================ ctgccgtactcctttcttgaactcataaatatgattcaataagaccttcatatcggttgccattccttccattatatatacaaatgcttagatgctatctaaattttatta Find is-nt database================================================ Query_seq: PI1425:PI1426|PI1425:PI1426:conserved hypothetical protein:flavodoxin:->->:1344910..1345020 111 ctgccgtactcctttcttgaactcataaatatgattcaataagaccttcatatcggttgccattccttccattatatatacaaatgcttagatgctatctaaattttatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1425:PI1426|PI1425:PI1426:conserved hypothetical protein:flavodoxin:->->:1344910..1345020 111 ctgccgtactcctttcttgaactcataaatatgattcaataagaccttcatatcggttgccattccttccattatatatacaaatgcttagatgctatctaaattttatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1425:PI1426|PI1425:PI1426:conserved hypothetical protein:flavodoxin:->->:1344910..1345020 111 ctgccgtactcctttcttgaactcataaatatgattcaataagaccttcatatcggttgccattccttccattatatatacaaatgcttagatgctatctaaattttatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ctgccgtactcctttcttgaactcataaatatgattcaataagaccttcatatcggttgccattccttccattatatatacaaatgcttagatgctatctaaattttatta Predict ORF larger than 30AA ================================================ ctgccgtactcctttcttgaactcataaatatgattcaataagaccttcatatcggttgccattccttccattatatatacaaatgcttagatgctatctaaattttatta 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================================================ ctgccgtactcctttcttgaactcataaatatgattcaataagaccttcatatcggttgccattccttccattatatatacaaatgcttagatgctatctaaattttatta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI1425:PI1426|PI1425:PI1426:conserved hypothetical protein:flavodoxin:->->:1344910..1345020 111 ctgccgtactcctttcttgaactcataaatatgattcaataagaccttcatatcggttgccattccttccattatatatacaaatgcttagatgctatctaaattttatta Intra-Species Hit: Count: 1 Min: 1 Max: 111 Len: 111 Subject: pint_PI1425_PI1426|conserved hypothetical protein:flavodoxin|POSITIVE:POSITIVE|[1344910, 1345020]|111 HSP 1 e-value: 7.0E-57 bit: 220.0 Len: 111 Query Start:1 Query End:111 Subject Strand: POSITIVE Subject Start: 1 Subject End: 111 ctgccgtactcctttcttgaactcataaatatgattcaataagaccttcatatcggttgccattccttccattatatatacaaatgcttagatgctatctaaattttatta ctgccgtactcctttcttgaactcataaatatgattcaataagaccttcatatcggttgccattccttccattatatatacaaatgcttagatgctatctaaattttatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUGCCGUACUCCUUUCUUGAACUCAUAAAUAUGAUUCAAUAAGACCUUCAUAUCGGUUGCCAUUCCUUCCAUUAUAUAUACAAAUGCUUAGAUGCUAUCUAAAUUUUAUUA .....(((........(((((.((((....)))))))))...((((........))))....................)))......((((((...))))))......... (-10.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUAAAAUUUAGAUAGCAUCUAAGCAUUUGUAUAUAUAAUGGAAGGAAUGGCAACCGAUAUGAAGGUCUUAUUGAAUCAUAUUUAUGAGUUCAAGAAAGGAGUACGGCAG ..(((((.(((((((...)))))))..))))).......................(((.(((.....((((.(((((((((....)))).)))))..)))).))))))... (-13.90) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 340 80 31 180 132 pint:PI0540|5end_conserved_hypothetical_protein_492955..493185_POSITIVE 278 75 32 127 83 pint:PI0989|5end_mannose-1-phosphate_guanylyltransferase_912833..913063_POSITIVE 274 71 36 215 185 pint:PI0837|5end_conserved_hypothetical_protein_772308..772538_POSITIVE 273 83 45 178 131 pint:PI0218|5end_conserved_hypothetical_protein_210770..211000_POSITIVE 268 71 43 36 13 pint:PI0810|5end_hypothetical_protein_746743..746973_POSITIVE 268 71 43 31 8 pint:PI0811|5end_protease/hemagglutinin_PrtT,_streptopain_family_746738..746968_POSITIVE 265 49 1 71 20 pint:PI0681|5end_hypothetical_protein_619000..619230_POSITIVE 262 80 40 51 22 pint:PI0833|5end_conserved_hypothetical_protein_770059..770289_POSITIVE 250 79 31 162 126 pint:PI1386|5end_sugar_phosphate_isomerase_1307004..1307234_POSITIVE 246 77 55 144 119 pint:PI1685|5end_GAF_domain-containing_protein_1601712..1601942_POSITIVE 246 77 55 26 1 pint:PI1686|5end_hypothetical_protein_1601594..1601824_POSITIVE 243 83 52 139 111 pint:PI1438|5end_penicillin_tolerance_protein/steroid_biosynthesis_1356263..1356493_POSITIVE 240 90 44 217 167 pint:PI2073|5end_mobilization_protein_2031995..2032225_POSITIVE 237 69 24 117 66 pint:PI1497|5end_LuxS_protein,_autoinducer_AI-2_production_protein_1417571..1417801_POSITIVE 233 89 42 153 119 pint:PI2014|5end_conserved_hypothetical_protein_1971471..1971701_POSITIVE 233 76 45 174 147 pint:PI0337|5end_hypothetical_protein_314732..314962_POSITIVE 227 70 21 44 1 pint:PI0075|5end_uridine_kinase_73748..73978_POSITIVE 226 81 54 172 147 pint:PI0042|5end_hypothetical_protein_42981..43211_POSITIVE 226 81 54 156 131 pint:PI0044|5end_thiamine_biosynthetic_enzyme_42965..43195_POSITIVE 222 73 32 177 133 pint:PI0729|5end_integrase_661428..661658_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 340 80 31 70 22 pint:PI0538|3end_transcriptional_regulator_492925..493075_POSITIVE 273 83 45 122 75 pint:PI0217|3end_conserved_hypothetical_protein;_possible_lipoprotein_210794..210944_POSITIVE 264 49 1 78 27 pint:PI2046|3end_hypothetical_protein_1999205..1999355_POSITIVE 262 80 40 67 38 pint:PI0832|3end_sigma-54-dependent_transcriptional_regulator_770155..770305_POSITIVE 250 79 31 137 101 pint:PI1385|3end_3-deoxy-d-manno-octulosonic_acid_8-phosphate_synthase_(DAHP_synthase,_Class_I)_1307059..1307209_POSITIVE 247 100 51 137 89 pint:PI0473|3end_30S_ribosomal_protein_S14_439013..439163_POSITIVE 246 77 55 125 100 pint:PI1684|3end_dimethyladenosine_transferase_1601773..1601923_POSITIVE 245 48 1 107 51 pint:PI0683|3end_hypothetical_protein_619797..619947_POSITIVE 230 83 53 28 1 pint:PI1436|3end_hypothetical_protein_1356232..1356382_POSITIVE 225 84 45 54 23 pint:PI0238|3end_two-component_system_response_regulator_237826..237976_POSITIVE 217 96 52 78 31 pint:PI0386|3end_integrase_354640..354790_POSITIVE 216 61 42 141 123 pint:PI2012|3end_hypothetical_protein_1971555..1971705_POSITIVE 209 70 47 147 116 pint:PI1874|3end_hypothetical_protein_1818924..1819074_POSITIVE 208 96 52 143 105 pint:PI1691|3end_hypothetical_protein_1605736..1605886_POSITIVE 208 26 2 53 32 pint:PI1531|3end_biotin--acetyl-CoA-carboxylase_ligase_1451734..1451884_POSITIVE 208 70 27 147 94 pint:PI0283|3end_Zn-dependent_peptidase_268881..269031_POSITIVE 205 89 45 151 110 pint:PI1651|3end_hypothetical_protein_1564512..1564662_POSITIVE 202 70 32 127 83 pint:PI2067|3end_hypothetical_protein_2028337..2028487_POSITIVE 199 67 53 133 118 pint:PI0680|3end_hypothetical_protein_618633..618783_POSITIVE 196 97 53 143 94 pint:PI1082|3end_polypeptide_deformylase_1001922..1002072_POSITIVE