Origin IGS: taagactttgcccggacagtaaattaaagatgcaccagagctgccgattgtgagcaatatattatatgtatgaacaggaggaggggataacgaataatcatgaactgat .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 atcagttcatgattattcgttatcccctcctcctgttcatacatataatatattgctcacaatcggcagctctggtgcatctttaatttactgtccgggcaaagtctta Mask Tandem Repeat Region ================================================ taagactttgcccggacagtaaattaaagatgcaccagagctgccgattgtgagcaatatattatatgtatgaacaggaggaggggataacgaataatcatgaactgat Find is-nt database================================================ Query_seq: TF2637:TF2638|TF2637:TF2638:conserved hypothetical protein:cation transport protein:->->:2808016..2808124 109 taagactttgcccggacagtaaattaaagatgcaccagagctgccgattgtgagcaatatattatatgtatgaacaggaggaggggataacgaataatcatgaactgat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF2637:TF2638|TF2637:TF2638:conserved hypothetical protein:cation transport protein:->->:2808016..2808124 109 taagactttgcccggacagtaaattaaagatgcaccagagctgccgattgtgagcaatatattatatgtatgaacaggaggaggggataacgaataatcatgaactgat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF2637:TF2638|TF2637:TF2638:conserved hypothetical protein:cation transport protein:->->:2808016..2808124 109 taagactttgcccggacagtaaattaaagatgcaccagagctgccgattgtgagcaatatattatatgtatgaacaggaggaggggataacgaataatcatgaactgat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taagactttgcccggacagtaaattaaagatgcaccagagctgccgattgtgagcaatatattatatgtatgaacaggaggaggggataacgaataatcatgaactgat Predict ORF larger than 30AA ================================================ taagactttgcccggacagtaaattaaagatgcaccagagctgccgattgtgagcaatatattatatgtatgaacaggaggaggggataacgaataatcatgaactgat 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================================================ taagactttgcccggacagtaaattaaagatgcaccagagctgccgattgtgagcaatatattatatgtatgaacaggaggaggggataacgaataatcatgaactgat Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF2637:TF2638|TF2637:TF2638:conserved hypothetical protein:cation transport protein:->->:2808016..2808124 109 taagactttgcccggacagtaaattaaagatgcaccagagctgccgattgtgagcaatatattatatgtatgaacaggaggaggggataacgaataatcatgaactgat Intra-Species Hit: Count: 1 Min: 1 Max: 109 Len: 109 Subject: tfor_TF2637_TF2638|conserved hypothetical protein:cation transport protein|POSITIVE:POSITIVE|[2808016,2808124]|109 HSP 1 e-value: 1.0E-55 bit: 216.0 Len: 109 Query Start:1 Query End:109 Subject Strand: POSITIVE Subject Start: 1 Subject End: 109 taagactttgcccggacagtaaattaaagatgcaccagagctgccgattgtgagcaatatattatatgtatgaacaggaggaggggataacgaataatcatgaactgat taagactttgcccggacagtaaattaaagatgcaccagagctgccgattgtgagcaatatattatatgtatgaacaggaggaggggataacgaataatcatgaactgat Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAGACUUUGCCCGGACAGUAAAUUAAAGAUGCACCAGAGCUGCCGAUUGUGAGCAAUAUAUUAUAUGUAUGAACAGGAGGAGGGGAUAACGAAUAAUCAUGAACUGAU ..........(((..................((......))..((..((((...((.(((((...))))))).))))..)).)))...........((((.....)))) (-12.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUCAGUUCAUGAUUAUUCGUUAUCCCCUCCUCCUGUUCAUACAUAUAAUAUAUUGCUCACAAUCGGCAGCUCUGGUGCAUCUUUAAUUUACUGUCCGGGCAAAGUCUUA ..........((((.......................................((((.......))))((.((((.(((............)))))))))..))))... (-10.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 354 45 6 72 38 tfor:TF2225|5end_CTn_excision_protein_2394935..2395165_POSITIVE 336 53 12 46 4 tfor:TF3022|5end_chorismate_synthase_3246136..3246366_POSITIVE 315 90 41 115 66 tfor:TF1308|5end_50S_ribosomal_protein_L28_1387224..1387454_POSITIVE 312 56 11 194 146 tfor:TF2519|5end_membrane_protein,_metallopeptidase_M23/M37_family_2697676..2697906_POSITIVE 310 50 7 51 2 tfor:TF3055|5end_hypothetical_protein_3278775..3279005_POSITIVE 297 88 41 88 33 tfor:TF0966|5end_hypothetical_protein_1015081..1015311_POSITIVE 296 60 12 219 160 tfor:TF2473|5end_poly(A)_polymerase/tRNA_nucleotidyltransferase_2650470..2650700_POSITIVE 295 55 12 72 29 tfor:TF2837|5end_conserved_hypothetical_protein_3027939..3028169_POSITIVE 291 79 35 78 29 tfor:TF0960|5end_beta-galactosidase_1008618..1008848_POSITIVE 291 60 14 223 160 tfor:TF0839|5end_aminopeptidasem_M28_family_890442..890672_POSITIVE 283 92 66 146 115 tfor:TF2406|5end_anti-sigma_factor_2580503..2580733_POSITIVE 281 87 43 231 192 tfor:TF0657|5end_conserved_hypothetical_protein_702893..703123_POSITIVE 280 50 5 115 61 tfor:TF3152|5end_hypothetical_protein_3386690..3386920_POSITIVE 276 46 7 103 56 tfor:TF2407|5end_glycosyltransferase_2581574..2581804_POSITIVE 275 50 6 189 148 tfor:TF2318|5end_conserved_hypothetical_protein_2475603..2475833_POSITIVE 274 85 41 202 165 tfor:TF2947|5end_isochorismate_synthase_3153633..3153863_POSITIVE 273 48 6 41 2 tfor:TF2255|5end_transfer_region-related_protein,_TraH_2427504..2427734_POSITIVE 271 69 27 194 151 tfor:TF1704|5end_conserved_hypothetical_protein_1825974..1826204_POSITIVE 271 78 34 141 85 tfor:TF1560|5end_glycosyltransferase_1666989..1667219_POSITIVE 271 53 11 72 29 tfor:TF1534|5end_conserved_hypothetical_protein_1639485..1639715_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 315 90 41 87 38 tfor:TF1307|3end_50S_ribosomal_protein_L33_1387276..1387426_POSITIVE 312 56 11 149 101 tfor:TF2518|3end_ATP-dependent_DNA_helicase_2697711..2697861_POSITIVE 310 50 7 85 36 tfor:TF3053|3end_conserved_hypothetical_protein_3278889..3279039_POSITIVE 297 88 41 63 8 tfor:TF0965|3end_glycogen_synthase_1015136..1015286_POSITIVE 296 60 12 137 78 tfor:TF2472|3end_GAF_domain-containing_protein_2650468..2650618_POSITIVE 295 55 12 81 38 tfor:TF2836|3end_methyltransferase_3028028..3028178_POSITIVE 283 92 66 129 98 tfor:TF2405|3end_RNA_polymerase_ECF-type_sigma_factor_2580566..2580716_POSITIVE 277 47 9 119 66 tfor:TF0419|3end_conserved_hypothetical_protein_435794..435944_POSITIVE 276 46 7 108 61 tfor:TF2406|3end_anti-sigma_factor_2581659..2581809_POSITIVE 271 78 34 146 90 tfor:TF1559|3end_glycosyltransferase_1667074..1667224_POSITIVE 268 90 42 97 39 tfor:TF2711|3end_hemolysis_secretion_protein_2886005..2886155_POSITIVE 263 56 13 36 1 tfor:TF2770|3end_conserved_hypothetical_protein_2956639..2956789_POSITIVE 261 59 12 138 81 tfor:TF0284|3end_alanine_racemase_314542..314692_POSITIVE 259 57 12 68 14 tfor:TF1206|3end_conserved_hypothetical_protein_1290136..1290286_POSITIVE 259 86 41 127 67 tfor:TF1029|3end_conserved_hypothetical_protein;_possible_phytoene_dehydrogenase_1088268..1088418_POSITIVE 258 56 11 111 70 tfor:TF3141|3end_NADH:_ubiquinone_oxidoreductase,_subunit_A_3376267..3376417_POSITIVE 257 57 11 57 2 tfor:TF3151|3end_glyoxalase_family_protein_3386705..3386855_POSITIVE 257 39 8 71 41 tfor:TF2923|3end_hypothetical_protein_3122403..3122553_POSITIVE 256 52 13 33 1 tfor:TF2224|3end_CTn_excision_protein_2394968..2395118_POSITIVE 254 86 41 62 12 tfor:TF1247|3end_alanyl-tRNA_synthetase_(alanine--tRNA_ligase)_1330928..1331078_POSITIVE