Origin IGS: ctttcataaagatgctttcctataatcttgctttaaatcttctcttaaagtgtatcttctttgtgtttacagtaaaatgtatcttctttacagaattgtatgatcttataataaagatatttgttgcaaaattactacaatcgatttaacctgcaaatgtttttta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taaaaaacatttgcaggttaaatcgattgtagtaattttgcaacaaatatctttattataagatcatacaattctgtaaagaagatacattttactgtaaacacaaagaagatacactttaagagaagatttaaagcaagattataggaaagcatctttatgaaag Mask Tandem Repeat Region ================================================ ctttcataaagatgctttcctataatcttgctttaaatcttctcttaaagtgtatcttctttgtgtttacagtaaaatgtatcttctttacagaattgtatgatcttataataaagatatttgttgcaaaattactacaatcgatttaacctgcaaatgtttttta Find is-nt database================================================ Query_seq: TF2674:TF2675|TF2674:TF2675:conserved hypothetical protein; possible phosphoesterase:conserved hypothetical protein:->->:2848838..2849003 166 ctttcataaagatgctttcctataatcttgctttaaatcttctcttaaagtgtatcttctttgtgtttacagtaaaatgtatcttctttacagaattgtatgatcttataataaagatatttgttgcaaaattactacaatcgatttaacctgcaaatgtttttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF2674:TF2675|TF2674:TF2675:conserved hypothetical protein; possible phosphoesterase:conserved hypothetical protein:->->:2848838..2849003 166 ctttcataaagatgctttcctataatcttgctttaaatcttctcttaaagtgtatcttctttgtgtttacagtaaaatgtatcttctttacagaattgtatgatcttataataaagatatttgttgcaaaattactacaatcgatttaacctgcaaatgtttttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF2674:TF2675|TF2674:TF2675:conserved hypothetical protein; possible phosphoesterase:conserved hypothetical protein:->->:2848838..2849003 166 ctttcataaagatgctttcctataatcttgctttaaatcttctcttaaagtgtatcttctttgtgtttacagtaaaatgtatcttctttacagaattgtatgatcttataataaagatatttgttgcaaaattactacaatcgatttaacctgcaaatgtttttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ctttcataaagatgctttcctataatcttgctttaaatcttctcttaaagtgtatcttctttgtgtttacagtaaaatgtatcttctttacagaattgtatgatcttataataaagatatttgttgcaaaattactacaatcgatttaacctgcaaatgtttttta Predict ORF larger than 30AA ================================================ Protein_Len: 47 Strand: + Start: 6 End: 146 ..... M K M L S Y N L A L N L L L K C I F F V F T V K C I F F T E L Y D L I I K I F V A K L L Q S I .................... Protein_Len: 41 Strand: - Start: 23 End: 145 ...................... L R A K F R R K F H I K K T N V T F H I K K V S N Y S R I I F I N T A F N S C D M ..................... ctttcataaagatgctttcctataatcttgctttaaatcttctcttaaagtgtatcttctttgtgtttacagtaaaatgtatcttctttacagaattgtatgatcttataataaagatatttgttgcaaaattactacaatcgatttaacctgcaaatgtttttta 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================================================ ctttcataaagatgctttcctataatcttgctttaaatcttctcttaaagtgtatcttctttgtgtttacagtaaaatgtatcttctttacagaattgtatgatcttataataaagatatttgttgcaaaattactacaatcgatttaacctgcaaatgtttttta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF2674:TF2675|TF2674:TF2675:conserved hypothetical protein; possible phosphoesterase:conserved hypothetical protein:->->:2848838..2849003 166 ctttcataaagatgctttcctataatcttgctttaaatcttctcttaaagtgtatcttctttgtgtttacagtaaaatgtatcttctttacagaattgtatgatcttataataaagatatttgttgcaaaattactacaatcgatttaacctgcaaatgtttttta Intra-Species Hit: Count: 1 Min: 1 Max: 166 Len: 166 Subject: tfor_TF2674_TF2675|conserved hypothetical protein; possible phosphoesterase:conserved hypothetical protein|POSITIVE:POSITIVE|[2848838,2849003]|166 HSP 1 e-value: 2.0E-89 bit: 329.0 Len: 166 Query Start:1 Query End:166 Subject Strand: POSITIVE Subject Start: 1 Subject End: 166 ctttcataaagatgctttcctataatcttgctttaaatcttctcttaaagtgtatcttctttgtgtttacagtaaaatgtatcttctttacagaattgtatgatcttataataaagatatttgttgcaaaattactacaatcgatttaacctgcaaatgtttttta ctttcataaagatgctttcctataatcttgctttaaatcttctcttaaagtgtatcttctttgtgtttacagtaaaatgtatcttctttacagaattgtatgatcttataataaagatatttgttgcaaaattactacaatcgatttaacctgcaaatgtttttta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUUUCAUAAAGAUGCUUUCCUAUAAUCUUGCUUUAAAUCUUCUCUUAAAGUGUAUCUUCUUUGUGUUUACAGUAAAAUGUAUCUUCUUUACAGAAUUGUAUGAUCUUAUAAUAAAGAUAUUUGUUGCAAAAUUACUACAAUCGAUUUAACCUGCAAAUGUUUUUUA ....(((((((((((..............(((((((........)))))))))))))...)))))..((((((....((((.......))))..))))))............((((((((((((....(((((.........))))).....)))))))))))).. (-22.03) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAAAACAUUUGCAGGUUAAAUCGAUUGUAGUAAUUUUGCAACAAAUAUCUUUAUUAUAAGAUCAUACAAUUCUGUAAAGAAGAUACAUUUUACUGUAAACACAAAGAAGAUACACUUUAAGAGAAGAUUUAAAGCAAGAUUAUAGGAAAGCAUCUUUAUGAAAG .........(((((...(((((((..(((((((((...((.......(((((((.(((((..((......))..))))).)))))))))..))))))))).......((((.....)))).......))))))).))))).(((((((........)))))))... (-22.91) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 272 45 1 196 163 tfor:TF0180|5end_carboxynorspermidine_decarboxylase_191267..191497_POSITIVE 268 45 13 48 21 tfor:TF1542|5end_transcriptional_regulator_1649105..1649335_POSITIVE 237 47 1 45 1 tfor:TF3045|5end_two-component_system_response_regulator_3273807..3274037_POSITIVE 223 60 13 155 112 tfor:TF0266|5end_conserved_hypothetical_protein_295097..295327_POSITIVE 222 65 38 35 7 tfor:TF0841|5end_NADH_dehydrogenase/NAD(P)H_nitroreductase_892165..892395_POSITIVE 204 79 36 123 77 tfor:TF0861|5end_HAD-superfamily_hydrolase,_subfamily_IA,_variant_1_family_protein_913377..913607_POSITIVE 201 90 53 72 31 tfor:TF2565|5end_50S_ribosomal_protein_L24_2739986..2740216_POSITIVE 201 68 26 73 33 tfor:TF1873|5end_possible_hemolysin_secretion_protein_2026745..2026975_POSITIVE 201 68 26 73 33 tfor:TF1131|5end_membrane-fusion_protein;_possible_hemolysin_secretion_protein_1207611..1207841_POSITIVE 199 105 62 175 125 tfor:TF0803|5end_hypothetical_protein_861045..861275_POSITIVE 197 47 4 164 122 tfor:TF2874|5end_conserved_hypothetical_protein_3064920..3065150_POSITIVE 194 49 13 120 72 tfor:TF1970|5end_oxaloacetate_decarboxylase,_beta_subunit_2116804..2117034_POSITIVE 193 31 5 203 171 tfor:TF2577|5end_30S_ribosomal_protein_S13_2746308..2746538_POSITIVE 191 46 2 215 162 tfor:TF0159|5end_conserved_hypothetical_protein_169756..169986_POSITIVE 189 43 14 81 49 tfor:TF1862|5end_hypothetical_protein_2018546..2018776_POSITIVE 187 44 11 78 41 tfor:TF3107|5end_hypothetical_protein_3338459..3338689_POSITIVE 187 59 11 89 46 tfor:TF2385|5end_conserved_hypothetical_protein;_possible_MazG_family_protein_2550676..2550906_POSITIVE 186 68 24 84 28 tfor:TF1796|5end_ABC_transporter,_ATP-binding_protein_1936492..1936722_POSITIVE 185 64 25 227 179 tfor:TF2613|5end_conserved_hypothetical_protein_2788477..2788707_POSITIVE 184 66 27 157 123 tfor:TF1062|5end_glycosyltransferase_1131727..1131957_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 223 60 13 148 105 tfor:TF0265|3end_conserved_hypothetical_protein,_Rhs_family_295170..295320_POSITIVE 222 65 38 123 95 tfor:TF0840|3end_hypothetical_protein_892333..892483_POSITIVE 201 90 53 52 11 tfor:TF2564|3end_50S_ribosomal_protein_L14_2740046..2740196_POSITIVE 201 68 26 59 19 tfor:TF1872|3end_ABC_transporter,_ATP-binding/permease_component_2026811..2026961_POSITIVE 201 68 26 59 19 tfor:TF1130|3end_ABC_transporter_ATP-binding_protein/permease_component_1207677..1207827_POSITIVE 199 105 62 132 82 tfor:TF0802|3end_glucose-1-phosphate_cytidylyltransferase_861082..861232_POSITIVE 197 47 4 130 88 tfor:TF2873|3end_conserved_hypothetical_protein_3064966..3065116_POSITIVE 193 152 111 51 14 tfor:TF1195|3end_hypothetical_protein_1278845..1278995_POSITIVE 188 103 61 94 35 tfor:TF2988|3end_conserved_hypothetical_protein_3204952..3205102_POSITIVE 188 88 41 68 26 tfor:TF0057|3end_conserved_hypothetical_protein_59747..59897_POSITIVE 187 44 11 147 110 tfor:TF3106|3end_hypothetical_protein_3338608..3338758_POSITIVE 187 59 11 89 46 tfor:TF2384|3end_thiol:disulfide_interchange_protein_2550756..2550906_POSITIVE 187 79 37 66 18 tfor:TF1504|3end_conserved_hypothetical_protein_1610665..1610815_POSITIVE 186 65 27 71 41 tfor:TF0075|3end_transcriptional_regulator_83118..83268_POSITIVE 184 48 2 120 73 tfor:TF0829|3end_conserved_hypothetical_protein_888250..888400_POSITIVE 179 103 61 121 71 tfor:TF2676|3end_conserved_hypothetical_protein_2850831..2850981_POSITIVE 178 65 21 100 50 tfor:TF2548|3end_30S_ribosomal_protein_S12_2731704..2731854_POSITIVE 178 110 64 73 26 tfor:TF2302|3end_conserved_hypothetical_protein;_possible_outer_membrane_protein_2458063..2458213_POSITIVE 177 60 15 57 2 tfor:TF2576|3end_translation_initiation_factor_IF-1_2746207..2746357_POSITIVE 177 68 30 114 85 tfor:TF0603|3end_glycosyltransferase_634838..634988_POSITIVE