Origin IGS: taagcagtttgtagacatatagagaaacaaaaaaatcatttcatctacggagttgcctgtaatcccgaaggaatatgggtagagtataaactataattgtttctctatatctctttttcggaaatcgaataagaacattttattcaacccattcagcaatacggcaaaaatgagcgagatatttttgtttatattaggaaggaaatgtaagtttgcagtactaaatataaatagggtttattgaataatacatttctctgacccaacctttgattattaaaattt .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9 aaattttaataatcaaaggttgggtcagagaaatgtattattcaataaaccctatttatatttagtactgcaaacttacatttccttcctaatataaacaaaaatatctcgctcatttttgccgtattgctgaatgggttgaataaaatgttcttattcgatttccgaaaaagagatatagagaaacaattatagtttatactctacccatattccttcgggattacaggcaactccgtagatgaaatgatttttttgtttctctatatgtctacaaactgctta Mask Tandem Repeat Region ================================================ taagcagtttgtagacatatagagaaacaaaaaaatcatttcatctacggagttgcctgtaatcccgaaggaatatgggtagagtataaactataattgtttctctatatctctttttcggaaatcgaataagaacattttattcaacccattcagcaatacggcaaaaatgagcgagatatttttgtttatattaggaaggaaatgtaagtttgcagtactaaatataaatagggtttattgaataatacatttctctgacccaacctttgattattaaaattt Find is-nt database================================================ Query_seq: TF1360:TF1361|TF1360:TF1361:conserved hypothetical protein:conserved hypothetical protein:->->:1441303..1441587 285 taagcagtttgtagacatatagagaaacaaaaaaatcatttcatctacggagttgcctgtaatcccgaaggaatatgggtagagtataaactataattgtttctctatatctctttttcggaaatcgaataagaacattttattcaacccattcagcaatacggcaaaaatgagcgagatatttttgtttatattaggaaggaaatgtaagtttgcagtactaaatataaatagggtttattgaataatacatttctctgacccaacctttgattattaaaattt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1360:TF1361|TF1360:TF1361:conserved hypothetical protein:conserved hypothetical protein:->->:1441303..1441587 285 taagcagtttgtagacatatagagaaacaaaaaaatcatttcatctacggagttgcctgtaatcccgaaggaatatgggtagagtataaactataattgtttctctatatctctttttcggaaatcgaataagaacattttattcaacccattcagcaatacggcaaaaatgagcgagatatttttgtttatattaggaaggaaatgtaagtttgcagtactaaatataaatagggtttattgaataatacatttctctgacccaacctttgattattaaaattt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1360:TF1361|TF1360:TF1361:conserved hypothetical protein:conserved hypothetical protein:->->:1441303..1441587 285 taagcagtttgtagacatatagagaaacaaaaaaatcatttcatctacggagttgcctgtaatcccgaaggaatatgggtagagtataaactataattgtttctctatatctctttttcggaaatcgaataagaacattttattcaacccattcagcaatacggcaaaaatgagcgagatatttttgtttatattaggaaggaaatgtaagtttgcagtactaaatataaatagggtttattgaataatacatttctctgacccaacctttgattattaaaattt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taagcagtttgtagacatatagagaaacaaaaaaatcatttcatctacggagttgcctgtaatcccgaaggaatatgggtagagtataaactataattgtttctctatatctctttttcggaaatcgaataagaacattttattcaacccattcagcaatacggcaaaaatgagcgagatatttttgtttatattaggaaggaaatgtaagtttgcagtactaaatataaatagggtttattgaataatacatttctctgacccaacctttgattattaaaattt Predict ORF larger than 30AA ================================================ Protein_Len: 52 Strand: + Start: 86 End: 241 ..................................................................................... M N Y N C F S I S L F R K S N K N I L F N P F S N T A K M S E I F L F I L G R K C K F A V L N I N R V Y ............................................ Protein_Len: 45 Strand: - Start: 94 End: 228 ............................................................................................. L Q K E I D R K R F D F L F M K N L G N L L V A F I L S I N K N I N P L F H L N A T S F M ......................................................... taagcagtttgtagacatatagagaaacaaaaaaatcatttcatctacggagttgcctgtaatcccgaaggaatatgggtagagtataaactataattgtttctctatatctctttttcggaaatcgaataagaacattttattcaacccattcagcaatacggcaaaaatgagcgagatatttttgtttatattaggaaggaaatgtaagtttgcagtactaaatataaatagggtttattgaataatacatttctctgacccaacctttgattattaaaattt 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================================================ taagcagtttgtagacatatagagaaacaaaaaaatcatttcatctacggagttgcctgtaatcccgaaggaatatgggtagagtataaactataattgtttctctatatctctttttcggaaatcgaataagaacattttattcaacccattcagcaatacggcaaaaatgagcgagatatttttgtttatattaggaaggaaatgtaagtttgcagtactaaatataaatagggtttattgaataatacatttctctgacccaacctttgattattaaaattt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF1360:TF1361|TF1360:TF1361:conserved hypothetical protein:conserved hypothetical protein:->->:1441303..1441587 285 taagcagtttgtagacatatagagaaacaaaaaaatcatttcatctacggagttgcctgtaatcccgaaggaatatgggtagagtataaactataattgtttctctatatctctttttcggaaatcgaataagaacattttattcaacccattcagcaatacggcaaaaatgagcgagatatttttgtttatattaggaaggaaatgtaagtttgcagtactaaatataaatagggtttattgaataatacatttctctgacccaacctttgattattaaaattt Intra-Species Hit: Count: 1 Min: 1 Max: 285 Len: 285 Subject: tfor_TF1360_TF1361|conserved hypothetical protein:conserved hypothetical protein|POSITIVE:POSITIVE|[1441303,1441587]|285 HSP 1 e-value: 1.0E-147 bit: 523.0 Len: 285 Query Start:1 Query End:285 Subject Strand: POSITIVE Subject Start: 1 Subject End: 285 taagcagtttgtagacatatagagaaacnnnnnnntcatttcatctacggagttgcctgtaatcccgaaggaatatgggtagagtataaactataattgtttctctatatctctttttcggaaatcgaataagaacattttattcaacccattcagcaatacggcaaaaatgagcgagatatttttgtttatattaggaaggaaatgtaagtttgcagtactaaatataaatagggtttattgaataatacatttctctgacccaacctttgattattaaaattt taagcagtttgtagacatatagagaaacaaaaaaatcatttcatctacggagttgcctgtaatcccgaaggaatatgggtagagtataaactataattgtttctctatatctctttttcggaaatcgaataagaacattttattcaacccattcagcaatacggcaaaaatgagcgagatatttttgtttatattaggaaggaaatgtaagtttgcagtactaaatataaatagggtttattgaataatacatttctctgacccaacctttgattattaaaattt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAGCAGUUUGUAGACAUAUAGAGAAACAAAAAAAUCAUUUCAUCUACGGAGUUGCCUGUAAUCCCGAAGGAAUAUGGGUAGAGUAUAAACUAUAAUUGUUUCUCUAUAUCUCUUUUUCGGAAAUCGAAUAAGAACAUUUUAUUCAACCCAUUCAGCAAUACGGCAAAAAUGAGCGAGAUAUUUUUGUUUAUAUUAGGAAGGAAAUGUAAGUUUGCAGUACUAAAUAUAAAUAGGGUUUAUUGAAUAAUACAUUUCUCUGACCCAACCUUUGAUUAUUAAAAUUU .....(((((((((((.(((((((((((((.............((....)).(((((((((.(((....))).)))))))))..............)))))))))))))..((((.((((.....)))).))))(((((((.(((..........((......))....((((((((((...)))))))))).....))).)))))))..)))))))).)))...........(((((....(((........)))...)))))..................... (-66.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAUUUUAAUAAUCAAAGGUUGGGUCAGAGAAAUGUAUUAUUCAAUAAACCCUAUUUAUAUUUAGUACUGCAAACUUACAUUUCCUUCCUAAUAUAAACAAAAAUAUCUCGCUCAUUUUUGCCGUAUUGCUGAAUGGGUUGAAUAAAAUGUUCUUAUUCGAUUUCCGAAAAAGAGAUAUAGAGAAACAAUUAUAGUUUAUACUCUACCCAUAUUCCUUCGGGAUUACAGGCAACUCCGUAGAUGAAAUGAUUUUUUUGUUUCUCUAUAUGUCUACAAACUGCUUA ............((..(((((((((..(((((.(((.((((((((.....((((((((....((((((.(((((...........................................))))).)))))).)))))))))))))))).)))))))))))))))))..))...(((.((((((((((((((....((((.....(((((......(((....)))....((....))..)))))......))))...)))))))))))))).)))............ (-60.23) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 329 84 43 219 181 tfor:TF1047|5end_tRNA_pseudouridylate_synthetase_A_(pseudouridylate_synthase_I)_1108483..1108713_POSITIVE 320 86 43 159 117 tfor:TF2129|5end_possible_3-oxoacyl-(acyl-carrier-protein)_synthase_2305464..2305694_POSITIVE 299 85 41 88 45 tfor:TF2080|5end_carboxyl-terminal_protease_2246880..2247110_POSITIVE 293 81 43 82 38 tfor:TF1033|5end_endothelin_converting_enzyme,_endopeptidase_1092772..1093002_POSITIVE 286 83 52 99 65 tfor:TF1742|5end_TPR_repeat-containing_protein_1873129..1873359_POSITIVE 283 186 145 44 1 tfor:TF1292|5end_sensor_histidine_protein_kinase_1372567..1372797_POSITIVE 273 79 33 64 6 tfor:TF0761|5end_conserved_hypothetical_protein_806412..806642_POSITIVE 272 73 39 38 3 tfor:TF2501|5end_DNA_mismatch_repair_protein_2676280..2676510_POSITIVE 272 84 48 107 64 tfor:TF2027|5end_conserved_hypothetical_protein_2183863..2184093_POSITIVE 271 71 43 218 190 tfor:TF1444|5end_conserved_hypothetical_protein;_possible_hemin_receptor_1528223..1528453_POSITIVE 271 90 41 56 3 tfor:TF0176|5end_hypothetical_protein_186520..186750_POSITIVE 270 190 148 87 40 tfor:TF1929|5end_conserved_hypothetical_protein_2076049..2076279_POSITIVE 268 87 41 64 28 tfor:TF0995|5end_conserved_hypothetical_protein_1049695..1049925_POSITIVE 267 78 38 78 37 tfor:TF1973|5end_propionyl-CoA_carboxylase,_beta_subunit_2119360..2119590_POSITIVE 266 88 43 81 27 tfor:TF1165|5end_conserved_hypothetical_protein_1244873..1245103_POSITIVE 264 149 101 130 82 tfor:TF0194|5end_hypothetical_protein_215193..215423_POSITIVE 263 81 47 33 1 tfor:TF1464|5end_conserved_hypothetical_protein_1553467..1553697_POSITIVE 261 87 45 84 47 tfor:TF2250|5end_transfer_region-related_protein,_TraD_2423380..2423610_POSITIVE 260 68 41 219 188 tfor:TF1848|5end_conserved_hypothetical_protein_1997589..1997819_POSITIVE 260 85 43 192 143 tfor:TF1507|5end_outer_membrane_receptor,_TonB-dependent_1614536..1614766_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 329 84 43 102 64 tfor:TF1046|3end_hypothetical_protein_1108446..1108596_POSITIVE 320 86 43 149 107 tfor:TF2128|3end_3-oxoacyl-(acyl-carrier_protein)_synthase_2305534..2305684_POSITIVE 299 85 41 46 3 tfor:TF2079|3end_permease_2246918..2247068_POSITIVE 293 81 43 72 28 tfor:TF1032|3end_possible_internalin-related_protein_1092842..1092992_POSITIVE 283 186 145 44 1 tfor:TF1291|3end_response_regulator_(fimR__protein)_1372647..1372797_POSITIVE 271 71 43 118 90 tfor:TF1443|3end_hypothetical_protein_1528203..1528353_POSITIVE 270 190 148 82 35 tfor:TF1928|3end_conserved_hypothetical_protein_2076124..2076274_POSITIVE 268 87 41 71 35 tfor:TF0994|3end_maltose_O-acetyltransferase_1049782..1049932_POSITIVE 267 78 38 53 12 tfor:TF1972|3end_conserved_hypothetical_protein_2119415..2119565_POSITIVE 264 149 101 97 49 tfor:TF0193|3end_conserved_hypothetical_protein;_possible_internalin-like_protein_(LPXTG_motif)_215240..215390_POSITIVE 261 87 45 42 5 tfor:TF2249|3end_transfer_region-related_protein,_TraC_2423418..2423568_POSITIVE 259 100 53 94 39 tfor:TF1236|3end_L-rhamnose_isomerase_1322106..1322256_POSITIVE 257 80 31 88 44 tfor:TF3087|3end_conserved_hypothetical_protein_3322582..3322732_POSITIVE 257 176 145 47 18 tfor:TF1605|3end_outer_membrane_protein,_TonB_dependent_receptor_1722414..1722564_POSITIVE 257 84 52 143 116 tfor:TF0885|3end_conjugative_transposon_protein_fragment_938055..938205_POSITIVE 257 83 48 149 123 tfor:TF0477|3end_dipeptide/tripeptide_permease,_POT_family_(proton-dependent_oligopeptide_transport_family)_497085..497235_POSITIVE 254 178 147 138 105 tfor:TF2275|3end_conserved_hypothetical_protein_2438300..2438450_POSITIVE 253 88 47 79 29 tfor:TF2382|3end_transposase_2548176..2548326_POSITIVE 252 79 37 52 6 tfor:TF1461|3end_DNA-damage-inducible_protein_F_1552253..1552403_POSITIVE 251 77 35 65 11 tfor:TF3118|3end_conserved_hypothetical_protein_3352824..3352974_POSITIVE