Origin IGS: tattcttgttttttacgtggtgttcaagcacacggtcgcagcaactgtgcgacaaaccactacatcaccctttttaggaaaatgcgggcgcaaaggtacgatttattttcacacaaacgctttcggggcttttatttttttcggggaagcgttacttttgtctctcgtacgataattaaaatcagattgct .........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 agcaatctgattttaattatcgtacgagagacaaaagtaacgcttccccgaaaaaaataaaagccccgaaagcgtttgtgtgaaaataaatcgtacctttgcgcccgcattttcctaaaaagggtgatgtagtggtttgtcgcacagttgctgcgaccgtgtgcttgaacaccacgtaaaaaacaagaata Mask Tandem Repeat Region ================================================ tattcttgttttttacgtggtgttcaagcacacggtcgcagcaactgtgcgacaaaccactacatcaccctttttaggaaaatgcgggcgcaaaggtacgatttattttcacacaaacgctttcggggcttttatttttttcggggaagcgttacttttgtctctcgtacgataattaaaatcagattgct Find is-nt database================================================ Query_seq: TF0206:TF0207|TF0206:TF0207:conserved hypothetical protein:conserved hypothetical protein:->->:233054..233244 191 tattcttgttttttacgtggtgttcaagcacacggtcgcagcaactgtgcgacaaaccactacatcaccctttttaggaaaatgcgggcgcaaaggtacgatttattttcacacaaacgctttcggggcttttatttttttcggggaagcgttacttttgtctctcgtacgataattaaaatcagattgct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0206:TF0207|TF0206:TF0207:conserved hypothetical protein:conserved hypothetical protein:->->:233054..233244 191 tattcttgttttttacgtggtgttcaagcacacggtcgcagcaactgtgcgacaaaccactacatcaccctttttaggaaaatgcgggcgcaaaggtacgatttattttcacacaaacgctttcggggcttttatttttttcggggaagcgttacttttgtctctcgtacgataattaaaatcagattgct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0206:TF0207|TF0206:TF0207:conserved hypothetical protein:conserved hypothetical protein:->->:233054..233244 191 tattcttgttttttacgtggtgttcaagcacacggtcgcagcaactgtgcgacaaaccactacatcaccctttttaggaaaatgcgggcgcaaaggtacgatttattttcacacaaacgctttcggggcttttatttttttcggggaagcgttacttttgtctctcgtacgataattaaaatcagattgct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tattcttgttttttacgtggtgttcaagcacacggtcgcagcaactgtgcgacaaaccactacatcaccctttttaggaaaatgcgggcgcaaaggtacgatttattttcacacaaacgctttcggggcttttatttttttcggggaagcgttacttttgtctctcgtacgataattaaaatcagattgct Predict ORF larger than 30AA ================================================ Protein_Len: 57 Strand: + Start: 2 End: 172 . M L V F Y V V F K H T V A A T V R Q T T T S P F L G K C G R K G T I Y F H T N A F G A F I F F G E A L L L S L V R ................... Protein_Len: 42 Strand: + Start: 64 End: 189 ............................................................... M T L F R K M R A Q R Y D L F S H K R F R G F Y F F R G S V T F V S R T I I K I R L .. tattcttgttttttacgtggtgttcaagcacacggtcgcagcaactgtgcgacaaaccactacatcaccctttttaggaaaatgcgggcgcaaaggtacgatttattttcacacaaacgctttcggggcttttatttttttcggggaagcgttacttttgtctctcgtacgataattaaaatcagattgct 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================================================ tattcttgttttttacgtggtgttcaagcacacggtcgcagcaactgtgcgacaaaccactacatcaccctttttaggaaaatgcgggcgcaaaggtacgatttattttcacacaaacgctttcggggcttttatttttttcggggaagcgttacttttgtctctcgtacgataattaaaatcagattgct Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF0206:TF0207|TF0206:TF0207:conserved hypothetical protein:conserved hypothetical protein:->->:233054..233244 191 tattcttgttttttacgtggtgttcaagcacacggtcgcagcaactgtgcgacaaaccactacatcaccctttttaggaaaatgcgggcgcaaaggtacgatttattttcacacaaacgctttcggggcttttatttttttcggggaagcgttacttttgtctctcgtacgataattaaaatcagattgct Intra-Species Hit: Count: 1 Min: 1 Max: 191 Len: 191 Subject: tfor_TF0206_TF0207|conserved hypothetical protein:conserved hypothetical protein|POSITIVE:POSITIVE|[233054,233244]|191 HSP 1 e-value: 8.0E-92 bit: 337.0 Len: 191 Query Start:1 Query End:191 Subject Strand: POSITIVE Subject Start: 1 Subject End: 191 tattcttgttttttacgtggtgttcaagcacacggtcgcagcaactgtgcgacaaaccactacatcaccctttttaggaaaatgcgggcgcaaaggtacgatttattttcacacaaacgctttcggggcttttannnnnnncggggaagcgttacttttgtctctcgtacgataattaaaatcagattgct tattcttgttttttacgtggtgttcaagcacacggtcgcagcaactgtgcgacaaaccactacatcaccctttttaggaaaatgcgggcgcaaaggtacgatttattttcacacaaacgctttcggggcttttatttttttcggggaagcgttacttttgtctctcgtacgataattaaaatcagattgct Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAUUCUUGUUUUUUACGUGGUGUUCAAGCACACGGUCGCAGCAACUGUGCGACAAACCACUACAUCACCCUUUUUAGGAAAAUGCGGGCGCAAAGGUACGAUUUAUUUUCACACAAACGCUUUCGGGGCUUUUAUUUUUUUCGGGGAAGCGUUACUUUUGUCUCUCGUACGAUAAUUAAAAUCAGAUUGCU ...(((.(((((....(((((......(((((..((....))...))))).....)))))...(((..(((....)))....((((((.((((((((..((.......)).....((((((((((..(..........)..))..))))))))))))))).).)))))).)))....))))).)))..... (-42.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGCAAUCUGAUUUUAAUUAUCGUACGAGAGACAAAAGUAACGCUUCCCCGAAAAAAAUAAAAGCCCCGAAAGCGUUUGUGUGAAAAUAAAUCGUACCUUUGCGCCCGCAUUUUCCUAAAAAGGGUGAUGUAGUGGUUUGUCGCACAGUUGCUGCGACCGUGUGCUUGAACACCACGUAAAAAACAAGAAUA .((((..((((....))))..((((((...........(((((((...((................)).)))))))..(((....)))..))))))..))))....(((((.((((....)))).))))).(((((...(((((((((((...))))..)))))..))..)))))................ (-37.09) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 395 130 85 220 169 tfor:TF3091|5end_50S_ribosomal_protein_L13_3324213..3324443_POSITIVE 376 58 16 227 179 tfor:TF2682|5end_N_utilization_substance_protein_A_2856308..2856538_POSITIVE 362 129 84 57 15 tfor:TF3159|5end_conserved_hypothetical_protein;_possible_transcriptional_regulator_3395220..3395450_POSITIVE 357 70 29 74 25 tfor:TF1548|5end_thiophene_and_furan_oxidation_protein_1652501..1652731_POSITIVE 347 59 13 82 31 tfor:TF3140|5end_Na+-translocating_NADH-quinone_reductase,_subunit_B_3373309..3373539_POSITIVE 339 128 84 67 30 tfor:TF1648|5end_hypothetical_protein_1759338..1759568_POSITIVE 336 169 124 163 111 tfor:TF2654|5end_arginyl-tRNA_synthetase_2822692..2822922_POSITIVE 331 168 124 219 180 tfor:TF2953|5end_possible_TonB-dependent_outer_membrane_receptor_3161143..3161373_POSITIVE 326 77 31 226 181 tfor:TF3022|5end_chorismate_synthase_3246136..3246366_POSITIVE 326 51 16 181 155 tfor:TF2159|5end_conserved_hypothetical_protein_2334446..2334676_POSITIVE 325 169 121 92 36 tfor:TF1061|5end_glycosyltransferase_1130264..1130494_POSITIVE 322 58 15 100 51 tfor:TF2331|5end_conserved_hypothetical_protein_2491073..2491303_POSITIVE 319 169 122 228 178 tfor:TF0686|5end_hypothetical_protein_732199..732429_POSITIVE 318 129 85 223 168 tfor:TF1785|5end_histidine_ammonia-lyase_1924494..1924724_POSITIVE 317 49 2 202 140 tfor:TF0791|5end_transposase_845166..845396_POSITIVE 316 53 16 82 31 tfor:TF2879|5end_tRNA_(guanine-N-1)-methyltransferase_3068254..3068484_POSITIVE 315 130 83 192 139 tfor:TF1184|5end_hypothetical_protein_1269004..1269234_POSITIVE 314 190 142 104 54 tfor:TF1559|5end_glycosyltransferase_1665879..1666109_POSITIVE 313 154 117 214 178 tfor:TF1681|5end_dTDP-4-keto-L-rhamnose_reductase_1794904..1795134_POSITIVE 313 54 16 213 180 tfor:TF0634|5end_hypothetical_protein_668120..668350_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 395 130 85 67 16 tfor:TF3089|3end_ISPg2_(PGIS2)_transposase_3324140..3324290_POSITIVE 347 59 13 82 31 tfor:TF3139|3end_Na+-translocating_NADH-quinone_reductase,_subunit_C_3373389..3373539_POSITIVE 336 163 122 149 110 tfor:TF2934|3end_acetyltransferase/carbonic_anhydrase_3137245..3137395_POSITIVE 325 169 121 65 9 tfor:TF1059|3end_possible_xanthan_lyase_1130317..1130467_POSITIVE 322 58 15 56 7 tfor:TF2330|3end_conserved_hypothetical_protein_2491109..2491259_POSITIVE 314 190 142 104 54 tfor:TF1558|3end_possible_heme_biosynthesis_protein_1665959..1666109_POSITIVE 311 60 15 58 1 tfor:TF1177|3end_conserved_hypothetical_protein;_possible_ribosomal_protein_S1_1264773..1264923_POSITIVE 310 129 84 61 18 tfor:TF2847|3end_hypothetical_protein_3034985..3035135_POSITIVE 308 49 6 57 19 tfor:TF0134|3end_transposase_element_146044..146194_POSITIVE 305 50 1 135 89 tfor:TF2832|3end_possible_proton/sodium:glutamate_symporter_protein_3023939..3024089_POSITIVE 305 130 89 46 3 tfor:TF1182|3end_hypothetical_protein_1268938..1269088_POSITIVE 302 62 23 131 94 tfor:TF2672|3end_lipoic_acid_synthetase_2847014..2847164_POSITIVE 301 58 13 130 88 tfor:TF2774|3end_2-amino-4-hydroxy-6-hydroxymethyldihydropteridine_pyrophosphokinase_2959719..2959869_POSITIVE 298 129 81 121 47 tfor:TF1803|3end_conserved_hypothetical_protein_1947120..1947270_POSITIVE 296 113 85 97 69 tfor:TF2659|3end_conserved_hypothetical_protein_2833055..2833205_POSITIVE 293 127 84 105 53 tfor:TF2120|3end_holliday_junction_endonuclease_2292760..2292910_POSITIVE 293 129 84 118 62 tfor:TF0614|3end_UDP-glucose_6-dehydrogenase/UDP-N-acetyl-D-mannosaminuronate_dehydrogenase_648863..649013_POSITIVE 292 168 124 141 104 tfor:TF1922|3end_hypothetical_protein_2072319..2072469_POSITIVE 286 151 117 81 44 tfor:TF1854|3end_competence-damage_protein_CinA_2008808..2008958_POSITIVE 286 59 18 49 2 tfor:TF1220|3end_conserved_hypothetical_protein_1307797..1307947_POSITIVE