Origin IGS: ggcacaaagataggaaaattaatgggaaaagggagagaaagcaatcggtaatcagccatgaacaaaatctttttcttacatttgaataaaaaaagttatgactatcaatttaaactgtaaaatttgtttttcttgatttatttgtcacctttgcagtgaaaaccgtgttaaatacattttgggagt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 actcccaaaatgtatttaacacggttttcactgcaaaggtgacaaataaatcaagaaaaacaaattttacagtttaaattgatagtcataactttttttattcaaatgtaagaaaaagattttgttcatggctgattaccgattgctttctctcccttttcccattaattttcctatctttgtgcc Mask Tandem Repeat Region ================================================ ggcacaaagataggaaaattaatgggaaaagggagagaaagcaatcggtaatcagccatgaacaaaatctttttcttacatttgaataaaaaaagttatgactatcaatttaaactgtaaaatttgtttttcttgatttatttgtcacctttgcagtgaaaaccgtgttaaatacattttgggagt Find is-nt database================================================ Query_seq: TF2855:TF2856|TF2855:TF2856:ATPase, AAA family:conserved hypothetical protein; possible TPR-repeat-containing protein:->->:3042072..3042257 186 ggcacaaagataggaaaattaatgggaaaagggagagaaagcaatcggtaatcagccatgaacaaaatctttttcttacatttgaataaaaaaagttatgactatcaatttaaactgtaaaatttgtttttcttgatttatttgtcacctttgcagtgaaaaccgtgttaaatacattttgggagt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF2855:TF2856|TF2855:TF2856:ATPase, AAA family:conserved hypothetical protein; possible TPR-repeat-containing protein:->->:3042072..3042257 186 ggcacaaagataggaaaattaatgggaaaagggagagaaagcaatcggtaatcagccatgaacaaaatctttttcttacatttgaataaaaaaagttatgactatcaatttaaactgtaaaatttgtttttcttgatttatttgtcacctttgcagtgaaaaccgtgttaaatacattttgggagt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF2855:TF2856|TF2855:TF2856:ATPase, AAA family:conserved hypothetical protein; possible TPR-repeat-containing protein:->->:3042072..3042257 186 ggcacaaagataggaaaattaatgggaaaagggagagaaagcaatcggtaatcagccatgaacaaaatctttttcttacatttgaataaaaaaagttatgactatcaatttaaactgtaaaatttgtttttcttgatttatttgtcacctttgcagtgaaaaccgtgttaaatacattttgggagt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ggcacaaagataggaaaattaatgggaaaagggagagaaagcaatcggtaatcagccatgaacaaaatctttttcttacatttgaataaaaaaagttatgactatcaatttaaactgtaaaatttgtttttcttgatttatttgtcacctttgcagtgaaaaccgtgttaaatacattttgggagt Predict ORF larger than 30AA ================================================ Protein_Len: 36 Strand: - Start: 2 End: 109 . C L S L F I L P F L S L F C D T I L W S C F R K R V N S Y F F N H S D M ............................................................................. ggcacaaagataggaaaattaatgggaaaagggagagaaagcaatcggtaatcagccatgaacaaaatctttttcttacatttgaataaaaaaagttatgactatcaatttaaactgtaaaatttgtttttcttgatttatttgtcacctttgcagtgaaaaccgtgttaaatacattttgggagt 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================================================ ggcacaaagataggaaaattaatgggaaaagggagagaaagcaatcggtaatcagccatgaacaaaatctttttcttacatttgaataaaaaaagttatgactatcaatttaaactgtaaaatttgtttttcttgatttatttgtcacctttgcagtgaaaaccgtgttaaatacattttgggagt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF2855:TF2856|TF2855:TF2856:ATPase, AAA family:conserved hypothetical protein; possible TPR-repeat-containing protein:->->:3042072..3042257 186 ggcacaaagataggaaaattaatgggaaaagggagagaaagcaatcggtaatcagccatgaacaaaatctttttcttacatttgaataaaaaaagttatgactatcaatttaaactgtaaaatttgtttttcttgatttatttgtcacctttgcagtgaaaaccgtgttaaatacattttgggagt Intra-Species Hit: Count: 1 Min: 1 Max: 186 Len: 186 Subject: tfor_TF2855_TF2856|ATPase, AAA family:conserved hypothetical protein; possible TPR-repeat-containing protein|POSITIVE:POSITIVE|[3042072,3042257]|186 HSP 1 e-value: 8.0E-89 bit: 327.0 Len: 186 Query Start:1 Query End:186 Subject Strand: POSITIVE Subject Start: 1 Subject End: 186 ggcacaaagataggaaaattaatgggaaaagggagagaaagcaatcggtaatcagccatgaacaaaatctttttcttacatttgaatnnnnnnngttatgactatcaatttaaactgtaaaatttgtttttcttgatttatttgtcacctttgcagtgaaaaccgtgttaaatacattttgggagt ggcacaaagataggaaaattaatgggaaaagggagagaaagcaatcggtaatcagccatgaacaaaatctttttcttacatttgaataaaaaaagttatgactatcaatttaaactgtaaaatttgtttttcttgatttatttgtcacctttgcagtgaaaaccgtgttaaatacattttgggagt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GGCACAAAGAUAGGAAAAUUAAUGGGAAAAGGGAGAGAAAGCAAUCGGUAAUCAGCCAUGAACAAAAUCUUUUUCUUACAUUUGAAUAAAAAAAGUUAUGACUAUCAAUUUAAACUGUAAAAUUUGUUUUUCUUGAUUUAUUUGUCACCUUUGCAGUGAAAACCGUGUUAAAUACAUUUUGGGAGU (((((...((((((.(((((((.(..(((.(..(((((......(((((.....)))..))......)))))..).(((((((((((......(((....)))....))))))).)))).......)))..)))))))).)))))).........((....)).)))))................. (-27.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACUCCCAAAAUGUAUUUAACACGGUUUUCACUGCAAAGGUGACAAAUAAAUCAAGAAAAACAAAUUUUACAGUUUAAAUUGAUAGUCAUAACUUUUUUUAUUCAAAUGUAAGAAAAAGAUUUUGUUCAUGGCUGAUUACCGAUUGCUUUCUCUCCCUUUUCCCAUUAAUUUUCCUAUCUUUGUGCC ......................((........((((.(((((.......(((((...((((..........))))...)))))((((((((((((((((((......))))))))).......))).))))))..)))))..))))........)).............................. (-22.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 324 50 1 151 94 tfor:TF0676|5end_methyltransferase_719027..719257_POSITIVE 313 62 22 51 12 tfor:TF1619|5end_riboflavin_synthase,_beta_subunit_1733948..1734178_POSITIVE 271 64 22 57 11 tfor:TF1881|5end_hypothetical_protein_2033412..2033642_POSITIVE 267 57 26 39 8 tfor:TF1240|5end_conserved_hypothetical_protein_1324304..1324534_POSITIVE 266 61 23 94 54 tfor:TF0992|5end_hypothetical_protein_1048251..1048481_POSITIVE 262 64 21 151 108 tfor:TF3140|5end_Na+-translocating_NADH-quinone_reductase,_subunit_B_3373309..3373539_POSITIVE 260 66 23 83 41 tfor:TF2696|5end_oxidoreductase,_short_chain_dehydrogenase/reductase_family_2870752..2870982_POSITIVE 256 49 1 150 107 tfor:TF1919|5end_hypothetical_protein_2070037..2070267_POSITIVE 256 49 1 110 67 tfor:TF1917|5end_hypothetical_protein_2069997..2070227_POSITIVE 256 63 24 61 16 tfor:TF1857|5end_conserved_hypothetical_protein_2014366..2014596_POSITIVE 255 62 23 88 50 tfor:TF2048|5end_conserved_hypothetical_protein_2210643..2210873_POSITIVE 253 69 26 122 70 tfor:TF2230|5end_CTn_excision_protein_2399799..2400029_POSITIVE 251 43 1 196 150 tfor:TF2128|5end_3-oxoacyl-(acyl-carrier_protein)_synthase_2304258..2304488_POSITIVE 251 37 5 105 73 tfor:TF1708|5end_transcriptional_regulator_1829185..1829415_POSITIVE 250 49 1 121 65 tfor:TF0998|5end_[acyl-carrier-protein]_S-malonyltransferase_1052019..1052249_POSITIVE 247 48 1 176 133 tfor:TF0780|5end_alpha-L-arabinofuranosidase,_precursor_A_831944..832174_POSITIVE 246 56 12 115 88 tfor:TF1029|5end_conserved_hypothetical_protein;_possible_phytoene_dehydrogenase_1086722..1086952_POSITIVE 246 169 142 161 135 tfor:TF0151|5end_hydrolase/beta-alanine_synthase_161117..161347_POSITIVE 245 57 11 141 104 tfor:TF2140|5end_hypothetical_protein_2316372..2316602_POSITIVE 245 84 41 209 168 tfor:TF2090|5end_phosphoribosylglycinamide_formyltransferase_2258692..2258922_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 324 50 1 63 6 tfor:TF0675|3end_conserved_hypothetical_protein_719019..719169_POSITIVE 273 58 24 75 39 tfor:TF0489|3end_D-xylose-proton_symporter_513069..513219_POSITIVE 266 61 23 97 57 tfor:TF0991|3end_probable_NAD(FAD)-dependent_dehydrogenase_1048334..1048484_POSITIVE 262 64 21 151 108 tfor:TF3139|3end_Na+-translocating_NADH-quinone_reductase,_subunit_C_3373389..3373539_POSITIVE 260 66 23 114 72 tfor:TF2694|3end_hypothetical_protein_2870863..2871013_POSITIVE 256 49 1 138 95 tfor:TF1918|3end_hypothetical_protein_2070105..2070255_POSITIVE 250 49 1 113 57 tfor:TF0997|3end_conserved_hypothetical_protein_1052091..1052241_POSITIVE 246 56 12 88 61 tfor:TF1028|3end_1-acyl-sn-glycerol-3-phosphate_acyltransferase_1086775..1086925_POSITIVE 245 50 1 144 93 tfor:TF0696|3end_3-oxoacyl-(acyl-carrier-protein)_reductase_740741..740891_POSITIVE 244 47 1 56 4 tfor:TF2152|3end_uronate_isomerase_2328061..2328211_POSITIVE 243 66 27 111 75 tfor:TF0470|3end_hypothetical_protein_487518..487668_POSITIVE 242 50 1 113 61 tfor:TF2527|3end_RNA_polymerase_ECF-type_sigma_factor_2710749..2710899_POSITIVE 242 69 22 140 78 tfor:TF0172|3end_transposase_element_185151..185301_POSITIVE 238 61 22 151 113 tfor:TF2334|3end_dihydropicolinate_reductase_2494794..2494944_POSITIVE 237 50 1 61 2 tfor:TF1210|3end_conserved_hypothetical_protein_1298651..1298801_POSITIVE 237 168 142 151 126 tfor:TF0150|3end_peptidyl-arginyl_deiminase_161188..161338_POSITIVE 236 170 124 120 75 tfor:TF1230|3end_hypothetical_protein_1315176..1315326_POSITIVE 236 156 116 117 83 tfor:TF0923|3end_tetracycline_resistance_element_mobilization_regulatory_protein_961704..961854_POSITIVE 234 56 13 126 70 tfor:TF1635|3end_conserved_hypothetical_protein;_possible_helicase_1746831..1746981_POSITIVE 232 48 1 134 93 tfor:TF1620|3end_TPR_domain_protein_1735223..1735373_POSITIVE