Origin IGS: agtctttgttttttattatagatgatttttaaacgataacggaagaaagaaaattttatagcttttgataaaggcttttctttcttccgtagattaaaaagat .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 atctttttaatctacggaagaaagaaaagcctttatcaaaagctataaaattttctttcttccgttatcgtttaaaaatcatctataataaaaaacaaagact Mask Tandem Repeat Region ================================================ agtctttgttttttattatagatgatttttaaacgataacggaagaaagaaaattttatagcttttgataaaggcttttctttcttccgtagattaaaaagat Find is-nt database================================================ Query_seq: TDE0730:TDE0731|TDE0730:TDE0731:hypothetical protein:hypothetical protein:<-<-:770678..770780 103 agtctttgttttttattatagatgatttttaaacgataacggaagaaagaaaattttatagcttttgataaaggcttttctttcttccgtagattaaaaagat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE0730:TDE0731|TDE0730:TDE0731:hypothetical protein:hypothetical protein:<-<-:770678..770780 103 agtctttgttttttattatagatgatttttaaacgataacggaagaaagaaaattttatagcttttgataaaggcttttctttcttccgtagattaaaaagat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE0730:TDE0731|TDE0730:TDE0731:hypothetical protein:hypothetical protein:<-<-:770678..770780 103 agtctttgttttttattatagatgatttttaaacgataacggaagaaagaaaattttatagcttttgataaaggcttttctttcttccgtagattaaaaagat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 agtctttgttttttattatagatgatttttaaacgataacggaagaaagaaaattttatagcttttgataaaggcttttctttcttccgtagattaaaaagat Predict ORF larger than 30AA ================================================ agtctttgttttttattatagatgatttttaaacgataacggaagaaagaaaattttatagcttttgataaaggcttttctttcttccgtagattaaaaagat 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================================================ agtctttgttttttattatagatgatttttaaacgataacggaagaaagaaaattttatagcttttgataaaggcttttctttcttccgtagattaaaaagat Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 74 HP_score: -5.0 Tail_Score: -5.10665 Start: 61 End: 75 Full_Region: AAAGAAAATTTTATA GCTTTT GAT AAAGGC TTTTCTTTCTTCCGT ............................................................GCTTTTGATAAAGGC............................ Find igs database================================================ Query_seq: TDE0730:TDE0731|TDE0730:TDE0731:hypothetical protein:hypothetical protein:<-<-:770678..770780 103 agtctttgttttttattatagatgatttttaaacgataacggaagaaagaaaattttatagcttttgataaaggcttttctttcttccgtagattaaaaagat Intra-Species Hit: Count: 1 Min: 1 Max: 103 Len: 103 Subject: NC_002967_TDE0730_TDE0731|hypothetical protein:hypothetical protein|NEGATIVE:NEGATIVE|[770678,770780]|103 HSP 1 e-value: 4.0E-52 bit: 204.0 Len: 103 Query Start:1 Query End:103 Subject Strand: POSITIVE Subject Start: 1 Subject End: 103 agtctttgttttttattatagatgatttttaaacgataacggaagaaagaaaattttatagcttttgataaaggcttttctttcttccgtagattaaaaagat agtctttgttttttattatagatgatttttaaacgataacggaagaaagaaaattttatagcttttgataaaggcttttctttcttccgtagattaaaaagat Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGUCUUUGUUUUUUAUUAUAGAUGAUUUUUAAACGAUAACGGAAGAAAGAAAAUUUUAUAGCUUUUGAUAAAGGCUUUUCUUUCUUCCGUAGAUUAAAAAGAU .((((((((((...((((....))))....))))....((((((((((((((.......((((((.....)))))))))))))))))))).......)))))) (-26.31) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUCUUUUUAAUCUACGGAAGAAAGAAAAGCCUUUAUCAAAAGCUAUAAAAUUUUCUUUCUUCCGUUAUCGUUUAAAAAUCAUCUAUAAUAAAAAACAAAGACU ...(((((((...(((((((((((((((...(((((........))))).)))))))))))))))......)))))))......................... (-22.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 748 90 41 181 132 NC_002967:TDE0730|5end_hypothetical_protein_770587..770817_NEGATIVE 250 91 61 200 172 NC_002967:TDE2764|5end_flagellar_protein_2819331..2819561_NEGATIVE 240 80 33 68 6 NC_002967:TDE0874|5end_transcriptional_regulator,_putative_896939..897169_POSITIVE 230 92 58 179 143 NC_002967:TDE2499|5end_hypothetical_protein_2523952..2524182_NEGATIVE 225 88 41 181 141 NC_002967:TDE2097|5end_hypothetical_protein_2124741..2124971_NEGATIVE 224 90 44 172 130 NC_002967:TDE2539|5end_hypothetical_protein_2565158..2565388_NEGATIVE 222 90 57 153 122 NC_002967:TDE1557|5end_hypothetical_protein_1599986..1600216_POSITIVE 219 95 73 150 128 NC_002967:TDE2319|5end_hypothetical_protein_2356320..2356550_NEGATIVE 217 91 62 135 100 NC_002967:TDE2425|5end_50S_ribosomal_protein_L11_2455150..2455380_NEGATIVE 217 88 41 190 149 NC_002967:TDE2024|5end_hypothetical_protein_2051021..2051251_NEGATIVE 216 88 60 108 80 NC_002967:TDE2035|5end_glucose-1-phosphate_adenylyltransferase_2062801..2063031_POSITIVE 213 95 54 138 98 NC_002967:TDE2370|5end_hypothetical_protein_2403390..2403620_POSITIVE 211 90 43 159 113 NC_002967:TDE2109|5end_ATP-dependent_RNA_helicase,_DEAD/DEAH_box_family_2135287..2135517_NEGATIVE 211 87 42 168 113 NC_002967:TDE1644|5end_methionyl-tRNA_formyltransferase_1695546..1695776_NEGATIVE 210 66 21 179 132 NC_002967:TDE0454|5end_hypothetical_protein_511243..511473_NEGATIVE 208 83 60 166 138 NC_002967:TDE2752|5end_hypothetical_protein_2809118..2809348_POSITIVE 208 77 35 178 132 NC_002967:TDE1412|5end_sodium/hydrogen_exchanger_family_protein_1453462..1453692_POSITIVE 203 50 17 111 68 NC_002967:TDE0998|5end_hypothetical_protein_1025202..1025432_POSITIVE 202 94 71 164 142 NC_002967:TDE2564|5end_PemK_family_protein_2589975..2590205_POSITIVE 201 94 73 161 135 NC_002967:TDE0379|5end_hypothetical_protein_432458..432688_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 238 88 41 48 8 NC_002967:TDE0664|3end_OmpA_family_protein_699728..699878_POSITIVE 224 90 44 135 93 NC_002967:TDE2540|3end_lipoprotein,_putative_2565195..2565345_NEGATIVE 220 89 41 121 75 NC_002967:TDE1008|3end_flagellar_protein,_putative_1032806..1032956_POSITIVE 220 88 41 83 40 NC_002967:TDE0665|3end_pyruvate_ferredoxin/flavodoxin_oxidoreductase_family_protein_699792..699942_NEGATIVE 219 89 54 146 105 NC_002967:TDE1827|3end_hydrolase,_carbon-nitrogen_family_1859943..1860093_NEGATIVE 218 80 42 64 14 NC_002967:TDE2437|3end_cyclic_nucleotide_binding_domain_protein_2467418..2467568_NEGATIVE 217 91 62 43 8 NC_002967:TDE2426|3end_transcription_antitermination_protein_NusG_2455242..2455392_NEGATIVE 217 88 41 136 95 NC_002967:TDE2025|3end_hypothetical_protein_2051075..2051225_NEGATIVE 217 78 38 113 74 NC_002967:TDE1844|3end_DNA_integrase_1873197..1873347_NEGATIVE 216 88 60 50 22 NC_002967:TDE2034|3end_glycosyl_transferase,_group_1_family_protein_2062823..2062973_POSITIVE 214 89 54 146 105 NC_002967:TDE1793|3end_hydrolase,_carbon-nitrogen_family_1829957..1830107_NEGATIVE 213 95 54 137 97 NC_002967:TDE2369|3end_hypothetical_protein_2403469..2403619_POSITIVE 210 89 61 81 48 NC_002967:TDE0479|3end_hydroxylamine_reductase_535029..535179_NEGATIVE 201 95 51 90 52 NC_002967:TDE2420|3end_DNA-directed_RNA_polymerase_beta'_subunit_2444960..2445110_NEGATIVE 201 94 73 139 113 NC_002967:TDE0378|3end_hypothetical_protein_432516..432666_POSITIVE 198 77 34 138 96 NC_002967:TDE1676|3end_ribosomal_protein_S18_1729373..1729523_NEGATIVE 196 94 56 124 80 NC_002967:TDE1414|3end_phosphonopyruvate_decarboxylase,_putative_1458028..1458178_POSITIVE 196 93 56 128 91 NC_002967:TDE1052|3end_rubredoxin_1078712..1078862_NEGATIVE 195 90 52 148 107 NC_002967:TDE2637|3end_hypothetical_protein_2676792..2676942_NEGATIVE 194 89 41 74 14 NC_002967:TDE1084|3end_folylpolyglutamate_synthetase,_putative_1114934..1115084_NEGATIVE