Origin IGS: taatcctcattcacagcttattagcaaacttctgccaaacacaaacaaattacttacgtgtagaaaaatatttatttacacgtaagtaataatttctcta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tagagaaattattacttacgtgtaaataaatatttttctacacgtaagtaatttgtttgtgtttggcagaagtttgctaataagctgtgaatgaggatta Mask Tandem Repeat Region ================================================ taatcctcattcacagcttattagcaaacttctgccaaacacaaacaaattacttacgtgtagaaaaatatttatttacacgtaagtaataatttctcta Find is-nt database================================================ Query_seq: PI1461:PI1462|PI1461:PI1462:conserved hypothetical protein:hypothetical protein:->->:1385134..1385233 100 taatcctcattcacagcttattagcaaacttctgccaaacacaaacaaattacttacgtgtagaaaaatatttatttacacgtaagtaataatttctcta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1461:PI1462|PI1461:PI1462:conserved hypothetical protein:hypothetical protein:->->:1385134..1385233 100 taatcctcattcacagcttattagcaaacttctgccaaacacaaacaaattacttacgtgtagaaaaatatttatttacacgtaagtaataatttctcta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1461:PI1462|PI1461:PI1462:conserved hypothetical protein:hypothetical protein:->->:1385134..1385233 100 taatcctcattcacagcttattagcaaacttctgccaaacacaaacaaattacttacgtgtagaaaaatatttatttacacgtaagtaataatttctcta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taatcctcattcacagcttattagcaaacttctgccaaacacaaacaaattacttacgtgtagaaaaatatttatttacacgtaagtaataatttctcta Predict ORF larger than 30AA ================================================ taatcctcattcacagcttattagcaaacttctgccaaacacaaacaaattacttacgtgtagaaaaatatttatttacacgtaagtaataatttctcta 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================================================ taatcctcattcacagcttattagcaaacttctgccaaacacaaacaaattacttacgtgtagaaaaatatttatttacacgtaagtaataatttctcta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI1461:PI1462|PI1461:PI1462:conserved hypothetical protein:hypothetical protein:->->:1385134..1385233 100 taatcctcattcacagcttattagcaaacttctgccaaacacaaacaaattacttacgtgtagaaaaatatttatttacacgtaagtaataatttctcta Intra-Species Hit: Count: 1 Min: 1 Max: 100 Len: 100 Subject: pint_PI1461_PI1462|conserved hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[1385134,1385233]|100 HSP 1 e-value: 2.0E-50 bit: 198.0 Len: 100 Query Start:1 Query End:100 Subject Strand: POSITIVE Subject Start: 1 Subject End: 100 taatcctcattcacagcttattagcaaacttctgccaaacacaaacaaattacttacgtgtagaaaaatatttatttacacgtaagtaataatttctcta taatcctcattcacagcttattagcaaacttctgccaaacacaaacaaattacttacgtgtagaaaaatatttatttacacgtaagtaataatttctcta HSP 2 e-value: 3.0E-6 bit: 52.0 Len: 42 Query Start:49 Query End:90 Subject Strand: NEGATIVE Subject Start: 49 Subject End: 90 ................................................attacttacgtgtagaaaaatatttatttacacgtaagtaat.......... ................................................attacttacgtgtaaataaatatttttctacacgtaagtaat.......... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUCCUCAUUCACAGCUUAUUAGCAAACUUCUGCCAAACACAAACAAAUUACUUACGUGUAGAAAAAUAUUUAUUUACACGUAAGUAAUAAUUUCUCUA ...............(((....))).......................((((((((((((((((.((....)).)))))))))))))))).......... (-21.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGAGAAAUUAUUACUUACGUGUAAAUAAAUAUUUUUCUACACGUAAGUAAUUUGUUUGUGUUUGGCAGAAGUUUGCUAAUAAGCUGUGAAUGAGGAUUA ..........((((((((((((((..............))))))))))))))..((((((...((((((....))))))))))))............... (-22.94) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 520 90 49 165 124 pint:PI0648|5end_hypothetical_protein_589448..589678_POSITIVE 382 90 50 165 125 pint:PI1673|5end_hypothetical_protein_1587718..1587948_POSITIVE 378 84 54 228 198 pint:PI0702|5end_conserved_hypothetical_protein;_possible_tetracenomycin_C_synthesis_protein_homolog_638640..638870_POSITIVE 377 85 46 116 77 pint:PI0579|5end_hypothetical_protein_523419..523649_POSITIVE 357 87 41 231 181 pint:PI0599|5end_hypothetical_protein_547376..547606_POSITIVE 350 97 51 143 97 pint:PI0983|5end_hypothetical_protein_909750..909980_POSITIVE 348 89 47 215 173 pint:PI0173|5end_hypothetical_protein_165305..165535_POSITIVE 341 90 50 143 103 pint:PI1450|5end_hypothetical_protein_1372683..1372913_POSITIVE 333 96 54 127 85 pint:PI0130|5end_hypothetical_protein_122032..122262_POSITIVE 330 97 54 173 130 pint:PI0115|5end_hypothetical_protein_108062..108292_POSITIVE 330 97 54 159 116 pint:PI0111|5end_hypothetical_protein_108048..108278_POSITIVE 330 97 54 124 81 pint:PI0112|5end_hypothetical_protein_108013..108243_POSITIVE 308 85 53 150 118 pint:PI0619|5end_hypothetical_protein_569364..569594_POSITIVE 273 89 52 225 189 pint:PI0172|5end_ISPg3-related_transposase_164262..164492_POSITIVE 257 85 47 227 189 pint:PI1674|5end_hypothetical_protein_1587829..1588059_POSITIVE 248 100 54 105 59 pint:PI0312|5end_hypothetical_protein_294591..294821_POSITIVE 243 73 46 231 204 pint:PI2099|5end_D-alanyl-D-alanine_dipeptidase_2052409..2052639_POSITIVE 242 85 46 116 77 pint:PI0535|5end_hypothetical_protein_489508..489738_POSITIVE 229 43 6 186 146 pint:PI1635|5end_hypothetical_protein_1553948..1554178_POSITIVE 220 37 6 152 124 pint:PI0754|5end_possible_outer_membrane_receptor_683771..684001_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 520 90 49 73 32 pint:PI0533|3end_ABC_transporter,_permease_protein_488421..488571_POSITIVE 433 89 49 50 10 pint:PI0797|3end_tRNA_pseudouridine_synthase_A_(pseudouridylate_synthase)_735752..735902_POSITIVE 417 90 49 42 1 pint:PI1461|3end_conserved_hypothetical_protein_1385073..1385223_POSITIVE 378 84 54 45 15 pint:PI0701|3end_hypothetical_protein_638537..638687_POSITIVE 355 97 51 51 6 pint:PI0808|3end_ISPg3-related_transposase_746457..746607_POSITIVE 350 90 54 48 12 pint:PI2160|3end_hypothetical_protein_2108357..2108507_POSITIVE 348 89 47 68 26 pint:PI0172|3end_ISPg3-related_transposase_165238..165388_POSITIVE 331 84 54 100 70 pint:PI0725|3end_hypothetical_protein_658933..659083_POSITIVE 251 85 54 141 110 pint:PI2105|3end_hypothetical_protein_2059586..2059736_POSITIVE 251 85 54 53 22 pint:PI2106|3end_hypothetical_protein_2059498..2059648_POSITIVE 247 60 11 100 56 pint:PI1818|3end_hypothetical_protein_1757270..1757420_POSITIVE 239 86 47 51 12 pint:PI1314|3end_hypothetical_protein_1231423..1231573_POSITIVE 213 42 9 132 94 pint:PI0633|3end_possible_preprotein_translocase,_YajC_subunit_580080..580230_POSITIVE 208 66 22 149 103 pint:PI1165|3end_hypothetical_protein_1089636..1089786_POSITIVE 208 66 22 50 4 pint:PI1166|3end_hypothetical_protein_1089537..1089687_POSITIVE 208 36 10 134 105 pint:PI0750|3end_zinc_protease_680633..680783_POSITIVE 204 36 5 141 106 pint:PI2074|3end_conserved_hypothetical_protein_2034375..2034525_POSITIVE 204 90 55 55 20 pint:PI0598|3end_hypothetical_protein_547233..547383_POSITIVE 203 36 6 151 124 pint:PI0753|3end_hypothetical_protein_683851..684001_POSITIVE 202 65 31 115 72 pint:PI0652|3end_conserved_hypothetical_protein_595792..595942_POSITIVE