Origin IGS: taaacaagcgctcttttgtgccttttaaaacatttttttcagaaaaaaattgttttctttcacgaaagcctatatatttgctcactgatacaaaaaataatcatttaataaaaaaacacagaactc .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 gagttctgtgtttttttattaaatgattattttttgtatcagtgagcaaatatataggctttcgtgaaagaaaacaatttttttctgaaaaaaatgttttaaaaggcacaaaagagcgcttgttta Mask Tandem Repeat Region ================================================ taaacaagcgctcttttgtgccttttaaaacatttttttcagaaaaaaattgttttctttcacgaaagcctatatatttgctcactgatacaaaaaataatcatttaataaaaaaacacagaactc Find is-nt database================================================ Query_seq: TF1996:TF1997|TF1996:TF1997:ATP-dependent exonuclease SbcC:ROK family transcriptional regulator:->->:2151652..2151777 126 taaacaagcgctcttttgtgccttttaaaacatttttttcagaaaaaaattgttttctttcacgaaagcctatatatttgctcactgatacaaaaaataatcatttaataaaaaaacacagaactc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1996:TF1997|TF1996:TF1997:ATP-dependent exonuclease SbcC:ROK family transcriptional regulator:->->:2151652..2151777 126 taaacaagcgctcttttgtgccttttaaaacatttttttcagaaaaaaattgttttctttcacgaaagcctatatatttgctcactgatacaaaaaataatcatttaataaaaaaacacagaactc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1996:TF1997|TF1996:TF1997:ATP-dependent exonuclease SbcC:ROK family transcriptional regulator:->->:2151652..2151777 126 taaacaagcgctcttttgtgccttttaaaacatttttttcagaaaaaaattgttttctttcacgaaagcctatatatttgctcactgatacaaaaaataatcatttaataaaaaaacacagaactc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaacaagcgctcttttgtgccttttaaaacatttttttcagaaaaaaattgttttctttcacgaaagcctatatatttgctcactgatacaaaaaataatcatttaataaaaaaacacagaactc Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: + Start: 16 End: 105 ............... M C L L K H F F Q K K I V F F H E S L Y I C S L I Q K I I I ..................... Protein_Len: 36 Strand: + Start: 18 End: 125 ................. M P F K T F F S E K N C F L S R K P I Y L L T D T K N N H L I K K H R T . taaacaagcgctcttttgtgccttttaaaacatttttttcagaaaaaaattgttttctttcacgaaagcctatatatttgctcactgatacaaaaaataatcatttaataaaaaaacacagaactc 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================================================ taaacaagcgctcttttgtgccttttaaaacatttttttcagaaaaaaattgttttctttcacgaaagcctatatatttgctcactgatacaaaaaataatcatttaataaaaaaacacagaactc Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF1996:TF1997|TF1996:TF1997:ATP-dependent exonuclease SbcC:ROK family transcriptional regulator:->->:2151652..2151777 126 taaacaagcgctcttttgtgccttttaaaacatttttttcagaaaaaaattgttttctttcacgaaagcctatatatttgctcactgatacaaaaaataatcatttaataaaaaaacacagaactc Intra-Species Hit: Count: 1 Min: 1 Max: 109 Len: 109 Subject: tfor_TF1996_TF1997|ATP-dependent exonuclease SbcC:ROK family transcriptional regulator|POSITIVE:POSITIVE|[2151652,2151777]|126 HSP 1 e-value: 1.0E-30 bit: 133.0 Len: 109 Query Start:1 Query End:109 Subject Strand: POSITIVE Subject Start: 1 Subject End: 109 taaacaagcgctcttttgtgccttttaaaacannnnnnncagnnnnnnnttgttttctttcacgaaagcctatatatttgctcactgatacaaaaaataatcatttaat................. taaacaagcgctcttttgtgccttttaaaacatttttttcagaaaaaaattgttttctttcacgaaagcctatatatttgctcactgatacaaaaaataatcatttaat................. Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAACAAGCGCUCUUUUGUGCCUUUUAAAACAUUUUUUUCAGAAAAAAAUUGUUUUCUUUCACGAAAGCCUAUAUAUUUGCUCACUGAUACAAAAAAUAAUCAUUUAAU ......((.(((..((((((......((((((.((((((....)))))).))))))....)))))))))))...................................... (-12.40) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUAAAUGAUUAUUUUUUGUAUCAGUGAGCAAAUAUAUAGGCUUUCGUGAAAGAAAACAAUUUUUUUCUGAAAAAAAUGUUUUAAAAGGCACAAAAGAGCGCUUGUUUA ..((((..(...((((((((..(.(.((((..........)))).).......((((((.((((((....)))))).))))))....)..))))))))....)..)))) (-16.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 247 93 56 91 46 tfor:TF2489|5end_hypothetical_protein_2664418..2664648_POSITIVE 227 87 52 95 54 tfor:TF2662|5end_hypothetical_protein_2835270..2835500_POSITIVE 223 90 49 189 152 tfor:TF0118|5end_5-keto-D-gluconate_5-reductase_129768..129998_POSITIVE 218 26 3 45 23 tfor:TF0336|5end_Xaa-Pro_aminopeptidase_360613..360843_POSITIVE 218 80 31 167 119 tfor:TF0157|5end_conserved_hypothetical_protein_166534..166764_POSITIVE 217 28 9 177 156 tfor:TF1135|5end_conserved_hypothetical_protein_1210938..1211168_POSITIVE 210 79 40 224 191 tfor:TF0901|5end_conserved_hypothetical_protein_946681..946911_POSITIVE 209 44 1 110 61 tfor:TF2216|5end_fumarate_hydratase,_class_I_2388227..2388457_POSITIVE 209 26 1 112 92 tfor:TF0433|5end_60_kDa_inner_membrane_protein_453357..453587_POSITIVE 209 40 5 73 31 tfor:TF0424|5end_outer_membrane_receptor,_TonB-linked_440028..440258_POSITIVE 205 22 3 40 20 tfor:TF2801|5end_outer_membrane_protein,_TonB_dependent_receptor_2986285..2986515_POSITIVE 202 89 55 178 141 tfor:TF2855|5end_ATPase,_AAA_family_3040657..3040887_POSITIVE 198 90 51 166 129 tfor:TF0966|5end_hypothetical_protein_1015081..1015311_POSITIVE 197 89 49 220 182 tfor:TF1403|5end_hypothetical_protein_1477775..1478005_POSITIVE 197 43 8 200 160 tfor:TF0158|5end_CRISPR-associated_helicase_Cas3_167438..167668_POSITIVE 196 92 53 52 14 tfor:TF1758|5end_conserved_hypothetical_protein_1894769..1894999_POSITIVE 195 89 50 183 128 tfor:TF2771|5end_undecaprenol_kinase,_bacitracin_resistance_protein_2956559..2956789_POSITIVE 194 90 49 214 166 tfor:TF2484|5end_hypothetical_protein_2660005..2660235_POSITIVE 194 81 56 195 176 tfor:TF2380|5end_hemagglutinin_2545012..2545242_POSITIVE 194 62 30 90 56 tfor:TF0111|5end_outer_membrane_protein_118107..118337_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 258 90 51 101 60 tfor:TF0075|3end_transcriptional_regulator_83118..83268_POSITIVE 247 93 56 71 26 tfor:TF2488|3end_hypothetical_protein_2664478..2664628_POSITIVE 223 90 49 149 112 tfor:TF0117|3end_2-dehydro-3-deoxygluconokinase_129808..129958_POSITIVE 218 26 3 63 41 tfor:TF0337|3end_hypothetical_protein_360711..360861_POSITIVE 218 80 31 144 96 tfor:TF0156|3end_conserved_hypothetical_protein_166591..166741_POSITIVE 215 89 49 123 81 tfor:TF0535|3end_surface_antigen_BspA_561701..561851_POSITIVE 209 44 1 52 3 tfor:TF2215|3end_conserved_hypothetical_protein_2388249..2388399_POSITIVE 209 26 1 41 21 tfor:TF0432|3end_3-deoxy-manno-octulosonate_cytidylyltransferase_453366..453516_POSITIVE 205 22 3 21 1 tfor:TF2800|3end_anti-sigma_factor_2986346..2986496_POSITIVE 200 26 8 106 84 tfor:TF0305|3end_peptidyl-prolyl_cis-trans_isomerase_331112..331262_POSITIVE 198 90 51 141 104 tfor:TF0965|3end_glycogen_synthase_1015136..1015286_POSITIVE 197 88 42 122 75 tfor:TF1519|3end_hypothetical_protein_1628022..1628172_POSITIVE 195 87 49 129 97 tfor:TF3006|3end_response_regulator,_transcriptional_regulator_RprY_3227162..3227312_POSITIVE 194 90 49 151 103 tfor:TF2483|3end_hypothetical_protein_2660022..2660172_POSITIVE 192 99 58 115 66 tfor:TF2097|3end_glucose_inhibited_division_protein_A_2271091..2271241_POSITIVE 192 56 13 64 23 tfor:TF1996|3end_ATP-dependent_exonuclease_SbcC_2151591..2151741_POSITIVE 191 48 5 79 29 tfor:TF2603|3end_transcriptional_regulator,_AraC_family_2777272..2777422_POSITIVE 188 91 52 127 96 tfor:TF3124|3end_dTDP-glucose_4,6-dehydratase_3359883..3360033_POSITIVE 188 91 61 49 14 tfor:TF0788|3end_protein-export_membrane_protein_841370..841520_POSITIVE 183 90 50 53 18 tfor:TF2659|3end_conserved_hypothetical_protein_2833055..2833205_POSITIVE