Origin IGS: taactcgtatctttatacaagaatttctttaaattttgatccctgtatgttttaaagaaattcttgtatttcacatttgtagaaacatgctactcggaaaaataga .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tctatttttccgagtagcatgtttctacaaatgtgaaatacaagaatttctttaaaacatacagggatcaaaatttaaagaaattcttgtataaagatacgagtta Mask Tandem Repeat Region ================================================ taactcgtatctttatacaagaatttctttaaattttgatccctgtatgttttaaagaaattcttgtatttcacatttgtagaaacatgctactcggaaaaataga Find is-nt database================================================ Query_seq: TF1097:TF1098|TF1097:TF1098:hypothetical protein:conserved hypothetical protein:->->:1165954..1166059 106 taactcgtatctttatacaagaatttctttaaattttgatccctgtatgttttaaagaaattcttgtatttcacatttgtagaaacatgctactcggaaaaataga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1097:TF1098|TF1097:TF1098:hypothetical protein:conserved hypothetical protein:->->:1165954..1166059 106 taactcgtatctttatacaagaatttctttaaattttgatccctgtatgttttaaagaaattcttgtatttcacatttgtagaaacatgctactcggaaaaataga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1097:TF1098|TF1097:TF1098:hypothetical protein:conserved hypothetical protein:->->:1165954..1166059 106 taactcgtatctttatacaagaatttctttaaattttgatccctgtatgttttaaagaaattcttgtatttcacatttgtagaaacatgctactcggaaaaataga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taactcgtatctttatacaagaatttctttaaattttgatccctgtatgttttaaagaaattcttgtatttcacatttgtagaaacatgctactcggaaaaataga Predict ORF larger than 30AA ================================================ taactcgtatctttatacaagaatttctttaaattttgatccctgtatgttttaaagaaattcttgtatttcacatttgtagaaacatgctactcggaaaaataga 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================================================ taactcgtatctttatacaagaatttctttaaattttgatccctgtatgttttaaagaaattcttgtatttcacatttgtagaaacatgctactcggaaaaataga Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 68 HP_score: -6.7 Tail_Score: -3.74347 Start: 16 End: 68 Full_Region: TAACTCGTATCTTTA TACAAGAATTTCTTTAAATTTTG ATCCCTG TATGTTTTAAAGAAATTCTTGTA TTTCACATTTGTAGA ...............TACAAGAATTTCTTTAAATTTTGATCCCTGTATGTTTTAAAGAAATTCTTGTA...................................... Find igs database================================================ Query_seq: TF1097:TF1098|TF1097:TF1098:hypothetical protein:conserved hypothetical protein:->->:1165954..1166059 106 taactcgtatctttatacaagaatttctttaaattttgatccctgtatgttttaaagaaattcttgtatttcacatttgtagaaacatgctactcggaaaaataga Intra-Species Hit: Count: 1 Min: 1 Max: 106 Len: 106 Subject: tfor_TF1097_TF1098|hypothetical protein:conserved hypothetical protein|POSITIVE:POSITIVE|[1165954,1166059]|106 HSP 1 e-value: 6.0E-54 bit: 210.0 Len: 106 Query Start:1 Query End:106 Subject Strand: POSITIVE Subject Start: 1 Subject End: 106 taactcgtatctttatacaagaatttctttaaattttgatccctgtatgttttaaagaaattcttgtatttcacatttgtagaaacatgctactcggaaaaataga taactcgtatctttatacaagaatttctttaaattttgatccctgtatgttttaaagaaattcttgtatttcacatttgtagaaacatgctactcggaaaaataga Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAACUCGUAUCUUUAUACAAGAAUUUCUUUAAAUUUUGAUCCCUGUAUGUUUUAAAGAAAUUCUUGUAUUUCACAUUUGUAGAAACAUGCUACUCGGAAAAAUAGA .........(((..(((((((((((((((((((.................))))))))))))))))))).........((((.......))))..)))........ (-21.73) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCUAUUUUUCCGAGUAGCAUGUUUCUACAAAUGUGAAAUACAAGAAUUUCUUUAAAACAUACAGGGAUCAAAAUUUAAAGAAAUUCUUGUAUAAAGAUACGAGUUA (((((((((........(((((((....)))))))..(((((((((((((((((((.................)))))))))))))))))))))))))).)).... (-22.63) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 229 99 64 189 149 tfor:TF0882|5end_hypothetical_protein_935919..936149_POSITIVE 225 100 73 210 183 tfor:TF0587|5end_outer_membrane_protein_618319..618549_POSITIVE 224 79 31 222 167 tfor:TF0402|5end_conserved_hypothetical_protein_422107..422337_POSITIVE 220 77 39 92 49 tfor:TF2236|5end_two-component_system_histidine_kinase_involved_in_CTn_2410183..2410413_POSITIVE 211 99 61 189 150 tfor:TF2597|5end_outer_membrane_receptor_protein;_possible_TonB_dependent_receptor_2767916..2768146_POSITIVE 207 95 64 231 195 tfor:TF1594|5end_hypothetical_protein_1709903..1710133_POSITIVE 203 82 43 210 174 tfor:TF2229.1|5end_rteR_regulatory_ortholog_(with_internal_stop)_2399454..2399684_POSITIVE 199 46 7 41 6 tfor:TF2603|5end_transcriptional_regulator,_AraC_family_2776578..2776808_POSITIVE 196 43 8 108 68 tfor:TF2686|5end_ABC_transporter,_ATP-binding_protein_2862741..2862971_POSITIVE 194 90 41 167 113 tfor:TF2582|5end_ABC_transporter,_ATP-binding_protein_2749433..2749663_POSITIVE 191 97 55 150 105 tfor:TF0547|5end_DNA_gyrase_subunit_A_(topoisomerase)_577528..577758_POSITIVE 186 80 34 97 52 tfor:TF1889|5end_hypothetical_protein_2041479..2041709_POSITIVE 186 100 75 33 11 tfor:TF1471|5end_conserved_hypothetical_protein_1564608..1564838_POSITIVE 185 90 42 128 88 tfor:TF2375|5end_conserved_hypothetical_protein_2540953..2541183_POSITIVE 183 80 44 137 105 tfor:TF0519|5end_thiamine_monophosphate_kinase_543700..543930_POSITIVE 181 97 56 207 163 tfor:TF2811|5end_glucosamine-6-phosphate_isomerase_3001892..3002122_POSITIVE 180 65 33 175 138 tfor:TF1473|5end_hypothetical_protein_1566341..1566571_POSITIVE 179 47 5 51 10 tfor:TF2682|5end_N_utilization_substance_protein_A_2856308..2856538_POSITIVE 178 97 54 62 19 tfor:TF2473|5end_poly(A)_polymerase/tRNA_nucleotidyltransferase_2650470..2650700_POSITIVE 178 97 77 27 1 tfor:TF2205|5end_conserved_hypothetical_protein;_possible_transcriptional_regulator_2379055..2379285_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 227 98 52 150 98 tfor:TF1275|3end_transcription-repair_coupling_factor_1361290..1361440_POSITIVE 220 77 39 89 46 tfor:TF2235|3end_tetracycline_resistance_protein_related_to_CtnDOT_tetQ_2410260..2410410_POSITIVE 214 69 21 76 28 tfor:TF1097|3end_hypothetical_protein_1165893..1166043_POSITIVE 186 80 34 97 52 tfor:TF1888|3end_RNA_polymerase_ECF-type_sigma_factor_2041559..2041709_POSITIVE 181 97 56 148 104 tfor:TF2810|3end_conserved_hypothetical_protein_3001913..3002063_POSITIVE 180 65 33 91 54 tfor:TF1472|3end_acyl-ACP_thioesterase_1566337..1566487_POSITIVE 178 100 78 64 44 tfor:TF1629|3end_hypothetical_protein_1741915..1742065_POSITIVE 172 99 70 36 6 tfor:TF2333|3end_signal_peptidase_I_2494046..2494196_POSITIVE 172 99 61 62 22 tfor:TF0402|3end_conserved_hypothetical_protein_422609..422759_POSITIVE 172 100 69 45 11 tfor:TF0007|3end_3-oxoacyl-[acyl-carrier-protein]_synthase_III_3599..3749_POSITIVE 170 68 34 66 35 tfor:TF1625|3end_cytidine/deoxycytidylate_deaminase_family_protein_1739412..1739562_POSITIVE 167 78 42 128 87 tfor:TF1090|3end_hypothetical_protein_1159360..1159510_POSITIVE 167 68 33 63 31 tfor:TF0833|3end_conserved_hypothetical_protein_889052..889202_POSITIVE 166 97 60 46 10 tfor:TF2440|3end_conserved_hypothetical_protein;_possible_DNA_mismatch_repair_protein_2618137..2618287_POSITIVE 166 53 23 60 36 tfor:TF1488|3end_conserved_hypothetical_protein_1588975..1589125_POSITIVE 166 97 61 137 101 tfor:TF1151|3end_conserved_hypothetical_protein_1233262..1233412_POSITIVE 164 67 27 45 1 tfor:TF2768|3end_ferredoxin_oxidoreductase,_beta_subunit_2955169..2955319_POSITIVE 163 98 61 144 104 tfor:TF2733|3end_DNA_polymerase_III,_alpha_subunit_2915973..2916123_POSITIVE 163 49 2 126 81 tfor:TF1291|3end_response_regulator_(fimR__protein)_1372647..1372797_POSITIVE 163 49 5 119 79 tfor:TF0465|3end_cobalamin_biosynthesis_protein_483913..484063_POSITIVE