Origin IGS: tcgaagtttcctcttttctttctttttgagcttgactctttttatattgtatctatcataccattctataaaaatttgtcaaatattacaggggtaaataaaaaactatcttttctttgagatagaaatgatagtttcttgtaaaataaac .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 gtttattttacaagaaactatcatttctatctcaaagaaaagatagttttttatttacccctgtaatatttgacaaatttttatagaatggtatgatagatacaatataaaaagagtcaagctcaaaaagaaagaaaagaggaaacttcga Mask Tandem Repeat Region ================================================ tcgaagtttcctcttttctttctttttgagcttgactctttttatattgtatctatcataccattctataaaaatttgtcaaatattacaggggtaaataaaaaactatcttttctttgagatagaaatgatagtttcttgtaaaataaac Find is-nt database================================================ Query_seq: SMT_77:SMT_78|SMT_77:SMT_78:inositol-5-monophosphate dehydrogenase:tryptophanyl-tRNA synthetase:<-<-:5445..5595 151 tcgaagtttcctcttttctttctttttgagcttgactctttttatattgtatctatcataccattctataaaaatttgtcaaatattacaggggtaaataaaaaactatcttttctttgagatagaaatgatagtttcttgtaaaataaac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_77:SMT_78|SMT_77:SMT_78:inositol-5-monophosphate dehydrogenase:tryptophanyl-tRNA synthetase:<-<-:5445..5595 151 tcgaagtttcctcttttctttctttttgagcttgactctttttatattgtatctatcataccattctataaaaatttgtcaaatattacaggggtaaataaaaaactatcttttctttgagatagaaatgatagtttcttgtaaaataaac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_77:SMT_78|SMT_77:SMT_78:inositol-5-monophosphate dehydrogenase:tryptophanyl-tRNA synthetase:<-<-:5445..5595 151 tcgaagtttcctcttttctttctttttgagcttgactctttttatattgtatctatcataccattctataaaaatttgtcaaatattacaggggtaaataaaaaactatcttttctttgagatagaaatgatagtttcttgtaaaataaac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tcgaagtttcctcttttctttctttttgagcttgactctttttatattgtatctatcataccattctataaaaatttgtcaaatattacaggggtaaataaaaaactatcttttctttgagatagaaatgatagtttcttgtaaaataaac Predict ORF larger than 30AA ================================================ tcgaagtttcctcttttctttctttttgagcttgactctttttatattgtatctatcataccattctataaaaatttgtcaaatattacaggggtaaataaaaaactatcttttctttgagatagaaatgatagtttcttgtaaaataaac 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================================================ tcgaagtttcctcttttctttctttttgagcttgactctttttatattgtatctatcataccattctataaaaatttgtcaaatattacaggggtaaataaaaaactatcttttctttgagatagaaatgatagtttcttgtaaaataaac Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_77:SMT_78|SMT_77:SMT_78:inositol-5-monophosphate dehydrogenase:tryptophanyl-tRNA synthetase:<-<-:5445..5595 151 tcgaagtttcctcttttctttctttttgagcttgactctttttatattgtatctatcataccattctataaaaatttgtcaaatattacaggggtaaataaaaaactatcttttctttgagatagaaatgatagtttcttgtaaaataaac Intra-Species Hit: Count: 1 Min: 1 Max: 151 Len: 151 Subject: smit_SMT_77_SMT_78|inositol-5-monophosphate dehydrogenase:tryptophanyl-tRNA synthetase|NEGATIVE:NEGATIVE|[5445,5595]|151 HSP 1 e-value: 1.0E-80 bit: 299.0 Len: 151 Query Start:1 Query End:151 Subject Strand: POSITIVE Subject Start: 1 Subject End: 151 tcgaagtttcctcttttctttctttttgagcttgactctttttatattgtatctatcataccattctataaaaatttgtcaaatattacaggggtaaataaaaaactatcttttctttgagatagaaatgatagtttcttgtaaaataaac tcgaagtttcctcttttctttctttttgagcttgactctttttatattgtatctatcataccattctataaaaatttgtcaaatattacaggggtaaataaaaaactatcttttctttgagatagaaatgatagtttcttgtaaaataaac Inter-species Hit: Count: 3 Min: 1 Max: 151 Len: 151 Subject: NC_008533_SPD_2055_SPD_2056|inosine-5'-monophosphate dehydrogenase:tryptophanyl-tRNA synthetase|NEGATIVE:NEGATIVE|[2032527,2032677]|151 HSP 1 e-value: 8.0E-76 bit: 283.0 Len: 151 Query Start:1 Query End:151 Subject Strand: POSITIVE Subject Start: 1 Subject End: 151 tcgaagtttcctcttttctttctttttgagcttgactctttttatattgtatctatcataccattctataaaaatttgtcaaatattacaggggtaaataaaaaactatcttttctttgagatagaaatgatagtttcttgtaaaataaac tcgaagtttcctcttttctttctttttgagcttgactctttttatattgtatctatcataccattctataaaaatttgtcaaatgttacaggggtaaataaaaaactatcttttcttcgagatagaaatgatagtttcttgtaaaataaac Subject: NC_003098_spr2033_spr2034|inositol-5-monophosphate dehydrogenase:tryptophanyl-tRNA synthetase|NEGATIVE:NEGATIVE|[2025027,2025177]|151 HSP 1 e-value: 8.0E-76 bit: 283.0 Len: 151 Query Start:1 Query End:151 Subject Strand: POSITIVE Subject Start: 1 Subject End: 151 tcgaagtttcctcttttctttctttttgagcttgactctttttatattgtatctatcataccattctataaaaatttgtcaaatattacaggggtaaataaaaaactatcttttctttgagatagaaatgatagtttcttgtaaaataaac tcgaagtttcctcttttctttctttttgagcttgactctttttatattgtatctatcataccattctataaaaatttgtcaaatgttacaggggtaaataaaaaactatcttttcttcgagatagaaatgatagtttcttgtaaaataaac Subject: NC_003028_SP_2228_SP_2229|inositol-5-monophosphate dehydrogenase:tryptophanyl-tRNA synthetase|NEGATIVE:NEGATIVE|[2147451,2147601]|151 HSP 1 e-value: 2.0E-73 bit: 276.0 Len: 151 Query Start:1 Query End:151 Subject Strand: POSITIVE Subject Start: 1 Subject End: 151 tcgaagtttcctcttttctttctttttgagcttgactctttttatattgtatctatcataccattctataaaaatttgtcaaatattacaggggtaaataaaaaactatcttttctttgagatagaaatgatagtttcttgtaaaataaac tcgaagtttcctcttttctttctttttgagcttgactctttttatattgtatctatcataccattctataaaaatttgtcaaatgttacaggggtaaataaaaaactatcttttcttcgagatagaaaagatagtttcttgtaaaataaac Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCGAAGUUUCCUCUUUUCUUUCUUUUUGAGCUUGACUCUUUUUAUAUUGUAUCUAUCAUACCAUUCUAUAAAAAUUUGUCAAAUAUUACAGGGGUAAAUAAAAAACUAUCUUUUCUUUGAGAUAGAAAUGAUAGUUUCUUGUAAAAUAAAC .........(((((.....(((.....))).(((((..((((((((..((((.....)))).....))))))))...))))).......)))))...((((.((((((((.(((((.......))))).)))))))).))))......... (-25.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUUUAUUUUACAAGAAACUAUCAUUUCUAUCUCAAAGAAAAGAUAGUUUUUUAUUUACCCCUGUAAUAUUUGACAAAUUUUUAUAGAAUGGUAUGAUAGAUACAAUAUAAAAAGAGUCAAGCUCAAAAAGAAAGAAAAGAGGAAACUUCGA ...........(((((((((((.(((((.......))))).)))))))))))................((((((...((((((((.....((((.....))))..))))))))..)))))).................(((....)))... (-28.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 753 50 1 141 92 smit:SMT_77|5end_inositol-5-monophosphate_dehydrogenase_5354..5584_NEGATIVE 267 35 5 142 100 smit:SMT_1543|5end_diphosphomevalonate_decarboxylase_1528024..1528254_NEGATIVE 258 43 6 124 85 smit:SMT_2065|5end_transcriptional_regulator,_MarR_family_1972665..1972895_POSITIVE 258 43 6 124 85 smit:SMT_1320|5end_transcriptional_regulator,_MarR_family_1290234..1290464_POSITIVE 252 47 2 146 99 smit:SMT_1645|5end_hypothetical_protein_1631738..1631968_POSITIVE 247 41 2 181 131 smit:SMT_1116|5end_K02244_competence_protein_ComGB_1053841..1054071_NEGATIVE 240 53 11 141 98 smit:SMT_1295|5end_transcriptional_regulator_CtsR_1256830..1257060_POSITIVE 239 43 9 134 91 smit:SMT_977|5end_conserved_hypothetical_protein,_Rrf2_family_protein_925689..925919_NEGATIVE 238 60 14 55 17 smit:SMT_1667|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1657567..1657797_NEGATIVE 238 60 14 155 117 smit:SMT_1666|5end_hypothetical_protein_1657467..1657697_NEGATIVE 233 139 106 131 95 smit:SMT_1504|5end_topology_modulation_protein_1487204..1487434_POSITIVE 231 36 9 115 91 smit:SMT_1199|5end_lactococcin_A_ABC_transporter_permease_protein_1161063..1161293_NEGATIVE 231 36 5 126 93 smit:SMT_522|5end_K02003_446719..446949_POSITIVE 230 60 11 123 67 smit:SMT_404|5end_hypothetical_protein_333386..333616_POSITIVE 226 50 5 112 63 smit:SMT_1388|5end_hypothetical_protein_1365214..1365444_POSITIVE 226 50 1 132 82 smit:SMT_360|5end_K07742_hypothetical_protein_295628..295858_POSITIVE 223 68 29 128 92 smit:SMT_1069|5end_acetyl_xylan_esterase,_putative_1009330..1009560_POSITIVE 223 46 4 155 92 smit:SMT_707|5end_hypothetical_protein_predicted_by_Glimmer/Critica_617120..617350_NEGATIVE 219 34 6 127 93 smit:SMT_1303|5end_tRNA-dihydrouridine_synthase_1265731..1265961_NEGATIVE 215 32 5 119 94 smit:SMT_1058|5end_primosomal_protein_DnaI_996486..996716_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 252 47 2 149 102 smit:SMT_1644|3end_3-isopropylmalate_dehydrogenase_1631821..1631971_POSITIVE 239 43 4 145 103 smit:SMT_2051|3end_enoyl-CoA_hydratase_1960067..1960217_NEGATIVE 239 43 9 58 15 smit:SMT_978|3end_hypothetical_protein_925765..925915_NEGATIVE 233 139 106 78 42 smit:SMT_1503|3end_SSU_ribosomal_protein_S20P_1487231..1487381_POSITIVE 231 36 9 102 78 smit:SMT_1200|3end_K06148_ATP-binding_cassette,_subfamily_C,_bacterial_1161076..1161226_NEGATIVE 231 36 5 142 109 smit:SMT_521|3end_K02005_HlyD_family_secretion_protein_446815..446965_POSITIVE 226 50 5 55 6 smit:SMT_1387|3end_hypothetical_protein_1365237..1365387_POSITIVE 226 50 1 110 60 smit:SMT_359|3end_transcription_termination-antitermination_factor_295686..295836_POSITIVE 223 46 4 150 87 smit:SMT_708|3end_hypothetical_protein_617125..617275_NEGATIVE 215 32 5 118 93 smit:SMT_1057|3end_replicative_DNA_helicase_996565..996715_POSITIVE 212 54 12 107 58 smit:SMT_1976|3end_immunoglobulin_A1_protease_1907713..1907863_POSITIVE 209 66 21 48 5 smit:SMT_1391|3end_dihydroxyacetone_kinase_1368589..1368739_POSITIVE 207 53 12 67 33 smit:SMT_1819|3end_K03442_small_conductance_mechanosensitive_ion_channel,_MscS_family_1793555..1793705_POSITIVE 207 59 11 131 80 smit:SMT_421|3end_K02003_363848..363998_POSITIVE 204 37 5 60 24 smit:SMT_897|3end_serine_O-acetyltransferase_844015..844165_NEGATIVE 203 37 1 151 110 smit:SMT_1732|3end_transcriptional_repressor_protein,_putative_1716962..1717112_POSITIVE 201 44 1 51 13 smit:SMT_1944|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1879075..1879225_NEGATIVE 198 46 1 130 79 smit:SMT_1567|3end_transketolase,_N-terminal_subunit_1560205..1560355_POSITIVE 196 40 5 117 78 smit:SMT_1105|3end_K03217_preprotein_translocase_YidC_subunit_1046802..1046952_NEGATIVE 194 43 10 136 96 smit:SMT_1024|3end_transcriptional_regulator,_MarR_family_958961..959111_NEGATIVE