Origin IGS: tgatcgtttgtcctgttatttaaataaaaggtcgttcgggaaaatactcgggcgactttttttatttacacgatacatgcagtcataaatgttttgcgtatctttgaaaattattcacttagtgtgcttggttttga .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tcaaaaccaagcacactaagtgaataattttcaaagatacgcaaaacatttatgactgcatgtatcgtgtaaataaaaaaagtcgcccgagtattttcccgaacgaccttttatttaaataacaggacaaacgatca Mask Tandem Repeat Region ================================================ tgatcgtttgtcctgttatttaaataaaaggtcgttcgggaaaatactcgggcgactttttttatttacacgatacatgcagtcataaatgttttgcgtatctttgaaaattattcacttagtgtgcttggttttga Find is-nt database================================================ Query_seq: TF3094:TF3095|TF3094:TF3095:translation elongation factor Ts:ABC transporter, ATP-binding protein:->->:3327084..3327220 137 tgatcgtttgtcctgttatttaaataaaaggtcgttcgggaaaatactcgggcgactttttttatttacacgatacatgcagtcataaatgttttgcgtatctttgaaaattattcacttagtgtgcttggttttga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF3094:TF3095|TF3094:TF3095:translation elongation factor Ts:ABC transporter, ATP-binding protein:->->:3327084..3327220 137 tgatcgtttgtcctgttatttaaataaaaggtcgttcgggaaaatactcgggcgactttttttatttacacgatacatgcagtcataaatgttttgcgtatctttgaaaattattcacttagtgtgcttggttttga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF3094:TF3095|TF3094:TF3095:translation elongation factor Ts:ABC transporter, ATP-binding protein:->->:3327084..3327220 137 tgatcgtttgtcctgttatttaaataaaaggtcgttcgggaaaatactcgggcgactttttttatttacacgatacatgcagtcataaatgttttgcgtatctttgaaaattattcacttagtgtgcttggttttga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgatcgtttgtcctgttatttaaataaaaggtcgttcgggaaaatactcgggcgactttttttatttacacgatacatgcagtcataaatgttttgcgtatctttgaaaattattcacttagtgtgcttggttttga Predict ORF larger than 30AA ================================================ Protein_Len: 32 Strand: - Start: 19 End: 114 .................. K F L L D N P F I S P R S K K N V R Y M C D Y I N Q T D K F I M ....................... tgatcgtttgtcctgttatttaaataaaaggtcgttcgggaaaatactcgggcgactttttttatttacacgatacatgcagtcataaatgttttgcgtatctttgaaaattattcacttagtgtgcttggttttga 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================================================ tgatcgtttgtcctgttatttaaataaaaggtcgttcgggaaaatactcgggcgactttttttatttacacgatacatgcagtcataaatgttttgcgtatctttgaaaattattcacttagtgtgcttggttttga Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 50 HP_score: -3.0 Tail_Score: -3.55761 Start: 23 End: 64 Full_Region: TTGTCCTGTTATTTA AATAAAAGGTCGTTCGGG AAAATA CTCGGGCGACTTTTTTTA TTTACACGATACATG ......................AATAAAAGGTCGTTCGGGAAAATACTCGGGCGACTTTTTTTA......................................................................... Find igs database================================================ Query_seq: TF3094:TF3095|TF3094:TF3095:translation elongation factor Ts:ABC transporter, ATP-binding protein:->->:3327084..3327220 137 tgatcgtttgtcctgttatttaaataaaaggtcgttcgggaaaatactcgggcgactttttttatttacacgatacatgcagtcataaatgttttgcgtatctttgaaaattattcacttagtgtgcttggttttga Intra-Species Hit: Count: 1 Min: 1 Max: 137 Len: 137 Subject: tfor_TF3094_TF3095|translation elongation factor Ts:ABC transporter, ATP-binding protein|POSITIVE:POSITIVE|[3327084,3327220]|137 HSP 1 e-value: 9.0E-60 bit: 230.0 Len: 137 Query Start:1 Query End:137 Subject Strand: POSITIVE Subject Start: 1 Subject End: 137 tgatcgtttgtcctgttatttaaataaaaggtcgttcgggaaaatactcgggcgacnnnnnnnatttacacgatacatgcagtcataaatgttttgcgtatctttgaaaattattcacttagtgtgcttggttttga tgatcgtttgtcctgttatttaaataaaaggtcgttcgggaaaatactcgggcgactttttttatttacacgatacatgcagtcataaatgttttgcgtatctttgaaaattattcacttagtgtgcttggttttga Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAUCGUUUGUCCUGUUAUUUAAAUAAAAGGUCGUUCGGGAAAAUACUCGGGCGACUUUUUUUAUUUACACGAUACAUGCAGUCAUAAAUGUUUUGCGUAUCUUUGAAAAUUAUUCACUUAGUGUGCUUGGUUUUGA ....(((((((.((((((((((((((((((((((((((((......)))))))))))..)))))))))...))))...))))..)))))))...............(((((((..(((.....)))..))))))).. (-32.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCAAAACCAAGCACACUAAGUGAAUAAUUUUCAAAGAUACGCAAAACAUUUAUGACUGCAUGUAUCGUGUAAAUAAAAAAAGUCGCCCGAGUAUUUUCCCGAACGACCUUUUAUUUAAAUAACAGGACAAACGAUCA ......((..((((......((((.....))))..((((((((...((....))..)))..)))))))))((((((((...((((..((.(......).))..)))).))))))))........))........... (-19.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 283 80 33 231 177 tfor:TF2945|5end_DNA-directed_RNA_polymerase_beta'_subunit_3147448..3147678_POSITIVE 283 84 47 216 180 tfor:TF2372|5end_acyl-(acyl-carrier-protein)-UDP-N-acetylglucosami_ne_acyltransferase_2537558..2537788_POSITIVE 280 54 29 109 85 tfor:TF0407|5end_lipoate-protein_ligase_B_(lipoyltransferase)_425084..425314_POSITIVE 274 50 1 189 134 tfor:TF2919|5end_5'-nucleotidase_family_protein_3114441..3114671_POSITIVE 270 55 11 163 117 tfor:TF2231|5end_DNA_methylase,_site-specific_DNA-methyltransferase_(adenine-specific)_2400307..2400537_POSITIVE 267 51 27 88 61 tfor:TF2968|5end_hypothetical_protein_3178170..3178400_POSITIVE 267 56 12 132 79 tfor:TF2831|5end_ABC_transporter,_permease_component_3021317..3021547_POSITIVE 267 63 26 140 108 tfor:TF1961|5end_isoprenoid_biosynthesis_related_protein_2111420..2111650_POSITIVE 262 77 33 42 3 tfor:TF1613|5end_transposase_1730963..1731193_POSITIVE 261 55 29 90 63 tfor:TF2807|5end_possible_chloride_channel_protein_2996637..2996867_POSITIVE 259 82 50 40 5 tfor:TF0748|5end_ATP-dependent_protease_La_792890..793120_POSITIVE 258 98 51 50 5 tfor:TF1300|5end_conserved_hypothetical_protein_1382389..1382619_POSITIVE 258 59 12 213 166 tfor:TF0029|5end_hypothetical_protein_24824..25054_POSITIVE 256 80 37 57 2 tfor:TF2473|5end_poly(A)_polymerase/tRNA_nucleotidyltransferase_2650470..2650700_POSITIVE 256 54 11 83 38 tfor:TF0865|5end_chloromuconate_cycloisomerase_915655..915885_POSITIVE 255 72 31 177 129 tfor:TF1063|5end_possible_amidase_enhancer_precursor;_sporulation-related_protein_1132671..1132901_POSITIVE 254 64 31 83 54 tfor:TF2495|5end_succinate-semialdehyde_dehydrogenase_(NADP+)_2669456..2669686_POSITIVE 254 80 31 226 175 tfor:TF2252|5end_transfer_region-related_protein,_TraF_2424621..2424851_POSITIVE 254 80 31 80 29 tfor:TF1470|5end_phosphohydrolase,_Icc_family_1563144..1563374_POSITIVE 253 59 29 180 149 tfor:TF0976|5end_outer_membrane_receptor,_Ton-linked_1024482..1024712_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 372 68 21 70 23 tfor:TF3094|3end_translation_elongation_factor_Ts_3327023..3327173_POSITIVE 280 54 29 109 85 tfor:TF0406|3end_monofunctional_biosynthetic_peptidoglycan_transglycosylase_425164..425314_POSITIVE 270 50 4 50 1 tfor:TF2918|3end_hypothetical_protein_3114382..3114532_POSITIVE 267 63 26 46 14 tfor:TF1960|3end_TonB_protein_2111406..2111556_POSITIVE 265 57 29 32 2 tfor:TF1908|3end_possible_phosphoglycerate_mutase_2063299..2063449_POSITIVE 261 55 29 38 11 tfor:TF2805|3end_zinc_protease_2996665..2996815_POSITIVE 258 59 12 72 25 tfor:TF0028|3end_hypothetical_protein_24763..24913_POSITIVE 256 54 11 56 11 tfor:TF0864|3end_O-succinylbenzoate--CoA_ligase_915708..915858_POSITIVE 254 64 31 67 38 tfor:TF2494|3end_NAD-dependent_4-hydroxybutyrate_dehydrogenase_2669520..2669670_POSITIVE 252 58 30 55 15 tfor:TF1281|3end_2-dehydro-3-deoxyphosphooctonate_aldolase_(3-deoxy-D-manno-2-octulosonate-8-phosphate_synthase)_(KDO-8-phosphate_synthetase)_(KDO_8-P_synthase)_1366487..1366637_POSITIVE 249 106 68 70 34 tfor:TF0793|3end_conserved_hypothetical_protein;_possible_AAA_superfamily_ATPase_851291..851441_POSITIVE 248 60 26 148 105 tfor:TF0389|3end_conserved_hypothetical_protein;_possible_integral_membrane_protein_409336..409486_POSITIVE 247 100 51 51 13 tfor:TF1137|3end_asparaginyl-tRNA_synthetase_(asparagine--tRNA_ligase)_1213917..1214067_POSITIVE 241 61 28 69 31 tfor:TF1197|3end_transcriptional_regulator_1281414..1281564_POSITIVE 241 59 26 134 95 tfor:TF0986|3end_50S_ribosomal_protein_L31_1041757..1041907_POSITIVE 240 54 29 90 65 tfor:TF1167|3end_hypothetical_protein_1248932..1249082_POSITIVE 239 55 11 44 8 tfor:TF2452|3end_outer_membrane_protein,_OmpH_family_2630415..2630565_POSITIVE 238 40 1 129 100 tfor:TF0944|3end_TonB-dependent_receptor_988399..988549_POSITIVE 237 51 13 147 112 tfor:TF2521|3end_TPR-repeat-containing_protein_2701598..2701748_POSITIVE 236 97 51 110 53 tfor:TF2768|3end_ferredoxin_oxidoreductase,_beta_subunit_2955169..2955319_POSITIVE