Origin IGS: tgaggatacacgtcggggtgaagtgttcggaaagttccgaaccgttttccgtgtactttttcgccgtttcatccgtcaggctgattgttcgatcgcacaggcaacggggggatacaaaagaaaggatgcccttcaccatacggaagaagcatcctttactacattattcaaagggggtgatcgatca .........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 tgatcgatcaccccctttgaataatgtagtaaaggatgcttcttccgtatggtgaagggcatcctttcttttgtatccccccgttgcctgtgcgatcgaacaatcagcctgacggatgaaacggcgaaaaagtacacggaaaacggttcggaactttccgaacacttcaccccgacgtgtatcctca Mask Tandem Repeat Region ================================================ tgaggatacacgtcggggtgaagtgttcggaaagttccgaaccgttttccgtgtactttttcgccgtttcatccgtcaggctgattgttcgatcgcacaggcaacggggggatacaaaagaaaggatgcccttcaccatacggaagaagcatcctttactacattattcaaagggggtgatcgatca Find is-nt database================================================ Query_seq: TF1730:TF1733|TF1730:TF1733:diaminopimelate decarboxylase:conserved hypothetical protein:->->:1855968..1856154 187 tgaggatacacgtcggggtgaagtgttcggaaagttccgaaccgttttccgtgtactttttcgccgtttcatccgtcaggctgattgttcgatcgcacaggcaacggggggatacaaaagaaaggatgcccttcaccatacggaagaagcatcctttactacattattcaaagggggtgatcgatca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1730:TF1733|TF1730:TF1733:diaminopimelate decarboxylase:conserved hypothetical protein:->->:1855968..1856154 187 tgaggatacacgtcggggtgaagtgttcggaaagttccgaaccgttttccgtgtactttttcgccgtttcatccgtcaggctgattgttcgatcgcacaggcaacggggggatacaaaagaaaggatgcccttcaccatacggaagaagcatcctttactacattattcaaagggggtgatcgatca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1730:TF1733|TF1730:TF1733:diaminopimelate decarboxylase:conserved hypothetical protein:->->:1855968..1856154 187 tgaggatacacgtcggggtgaagtgttcggaaagttccgaaccgttttccgtgtactttttcgccgtttcatccgtcaggctgattgttcgatcgcacaggcaacggggggatacaaaagaaaggatgcccttcaccatacggaagaagcatcctttactacattattcaaagggggtgatcgatca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgaggatacacgtcggggtgaagtgttcggaaagttccgaaccgttttccgtgtactttttcgccgtttcatccgtcaggctgattgttcgatcgcacaggcaacggggggatacaaaagaaaggatgcccttcaccatacggaagaagcatcctttactacattattcaaagggggtgatcgatca Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: + Start: 85 End: 177 .................................................................................... M F D R T G N G G I Q K K G C P S P Y G R S I L Y Y I I Q R G .......... Protein_Len: 60 Strand: + Start: 6 End: 185 ..... M H V G V K C S E S S E P F S V Y F F A V S S V R L I V R S H R Q R G D T K E R M P F T I R K K H P L L H Y S K G V I D .. Protein_Len: 55 Strand: + Start: 23 End: 187 ...................... M F G K F R T V F R V L F R R F I R Q A D C S I A Q A T G G Y K R K D A L H H T E E A S F T T L F K G G D R S Protein_Len: 46 Strand: - Start: 2 End: 139 . L I C T P T F H E S L E S G N E T Y K K A T E D T L S I T R D C L C R P S V F S L I G K V M ................................................ tgaggatacacgtcggggtgaagtgttcggaaagttccgaaccgttttccgtgtactttttcgccgtttcatccgtcaggctgattgttcgatcgcacaggcaacggggggatacaaaagaaaggatgcccttcaccatacggaagaagcatcctttactacattattcaaagggggtgatcgatca 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================================================ tgaggatacacgtcggggtgaagtgttcggaaagttccgaaccgttttccgtgtactttttcgccgtttcatccgtcaggctgattgttcgatcgcacaggcaacggggggatacaaaagaaaggatgcccttcaccatacggaagaagcatcctttactacattattcaaagggggtgatcgatca Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 73 HP_score: -6.4 Tail_Score: -4.52589 Start: 120 End: 134 Full_Region: cttcttccgtatggt gaaggg cat cctttc ttttgtatccccccg .......................................................................................................................gaagggcatcctttc..................................................... TransTerm Strand: - Conf: 72 HP_score: -4.1 Tail_Score: -4.83243 Start: 124 End: 154 Full_Region: gaataatgtagtaaa ggatgcttcttc cgtatggt gaagggcatcc tttcttttgtatccc ...........................................................................................................................ggatgcttcttccgtatggtgaagggcatcc................................. Find igs database================================================ Query_seq: TF1730:TF1733|TF1730:TF1733:diaminopimelate decarboxylase:conserved hypothetical protein:->->:1855968..1856154 187 tgaggatacacgtcggggtgaagtgttcggaaagttccgaaccgttttccgtgtactttttcgccgtttcatccgtcaggctgattgttcgatcgcacaggcaacggggggatacaaaagaaaggatgcccttcaccatacggaagaagcatcctttactacattattcaaagggggtgatcgatca Intra-Species Hit: Count: 1 Min: 1 Max: 187 Len: 187 Subject: tfor_TF1730_TF1733|diaminopimelate decarboxylase:conserved hypothetical protein|POSITIVE:POSITIVE|[1855968,1856154]|187 HSP 1 e-value: 1.0E-102 bit: 371.0 Len: 187 Query Start:1 Query End:187 Subject Strand: POSITIVE Subject Start: 1 Subject End: 187 tgaggatacacgtcggggtgaagtgttcggaaagttccgaaccgttttccgtgtactttttcgccgtttcatccgtcaggctgattgttcgatcgcacaggcaacggggggatacaaaagaaaggatgcccttcaccatacggaagaagcatcctttactacattattcaaagggggtgatcgatca tgaggatacacgtcggggtgaagtgttcggaaagttccgaaccgttttccgtgtactttttcgccgtttcatccgtcaggctgattgttcgatcgcacaggcaacggggggatacaaaagaaaggatgcccttcaccatacggaagaagcatcctttactacattattcaaagggggtgatcgatca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAGGAUACACGUCGGGGUGAAGUGUUCGGAAAGUUCCGAACCGUUUUCCGUGUACUUUUUCGCCGUUUCAUCCGUCAGGCUGAUUGUUCGAUCGCACAGGCAACGGGGGGAUACAAAAGAAAGGAUGCCCUUCACCAUACGGAAGAAGCAUCCUUUACUACAUUAUUCAAAGGGGGUGAUCGAUCA .(((((...(((.(((((....(.(((((((....))))))))...))))))))...)))))......(((.((....)).)))..(.((((((((...(....)....(((((....(((((((((((.((((........))))..))))))))).))....))))).......)))))))).). (-56.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAUCGAUCACCCCCUUUGAAUAAUGUAGUAAAGGAUGCUUCUUCCGUAUGGUGAAGGGCAUCCUUUCUUUUGUAUCCCCCCGUUGCCUGUGCGAUCGAACAAUCAGCCUGACGGAUGAAACGGCGAAAAAGUACACGGAAAACGGUUCGGAACUUUCCGAACACUUCACCCCGACGUGUAUCCUCA .((..((((((.........((((...((.((((((((((.(((((.....).)))))))))))))))).)))).......((((.(((((((..(((.....(((.((....)).))).....)))....))))).))..))))(((((((....))))))).............))).))).)). (-47.90) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 466 110 63 54 5 tfor:TF2165|5end_hypothetical_protein_2341654..2341884_POSITIVE 437 108 62 206 145 tfor:TF2820|5end_argininosuccinate_synthetase_3009876..3010106_POSITIVE 427 110 63 84 35 tfor:TF2108|5end_hypothetical_protein_2277385..2277615_POSITIVE 425 115 72 218 160 tfor:TF0962|5end_possible_amidohydrolase_1011593..1011823_POSITIVE 401 88 42 216 159 tfor:TF2682|5end_N_utilization_substance_protein_A_2856308..2856538_POSITIVE 400 110 62 91 56 tfor:TF2010|5end_hypothetical_protein_2163246..2163476_POSITIVE 399 51 11 154 111 tfor:TF1898|5end_RNA_polymerase_ECF-type_sigma_factor_2052115..2052345_POSITIVE 397 110 62 94 40 tfor:TF2296|5end_hypothetical_protein_2448892..2449122_POSITIVE 396 109 63 231 175 tfor:TF1494|5end_cobinamide_kinase/cobinamide_phosphate_guanylyltransferase_1594016..1594246_POSITIVE 390 163 127 223 182 tfor:TF1651|5end_integrase_1761296..1761526_POSITIVE 388 110 61 145 97 tfor:TF1182|5end_hypothetical_protein_1268565..1268795_POSITIVE 383 110 65 203 159 tfor:TF2177|5end_hypothetical_protein_2349281..2349511_POSITIVE 382 104 62 169 126 tfor:TF2315|5end_thioesterase_2473996..2474226_POSITIVE 375 113 74 180 138 tfor:TF1886|5end_auxin-regulated_protein_2038720..2038950_POSITIVE 375 116 74 70 23 tfor:TF0518|5end_glutaminyl-tRNA_synthetase_541770..542000_POSITIVE 374 109 63 69 22 tfor:TF1250|5end_possible_cation_efflux_pump_1332324..1332554_POSITIVE 374 110 62 104 47 tfor:TF0546|5end_conserved_hypothetical_protein_576380..576610_POSITIVE 374 59 11 161 120 tfor:TF0229|5end_beta-galactosidase_254857..255087_POSITIVE 373 110 63 102 57 tfor:TF2747|5end_heat_shock_protein,_HSP90_family_2928279..2928509_POSITIVE 370 109 61 224 167 tfor:TF2782|5end_conserved_hypothetical_protein_2966455..2966685_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 427 110 63 55 6 tfor:TF2107|3end_hypothetical_protein_2277436..2277586_POSITIVE 399 51 11 66 23 tfor:TF1897|3end_conserved_hypothetical_protein;_possible_aminopeptidase_2052107..2052257_POSITIVE 388 110 61 145 97 tfor:TF1186|3end_hypothetical_protein_1269815..1269965_POSITIVE 382 104 62 137 94 tfor:TF2314|3end_conserved_hypothetical_protein_2474044..2474194_POSITIVE 375 113 74 131 89 tfor:TF1885|3end_conserved_hypothetical_protein_2038751..2038901_POSITIVE 374 110 62 97 40 tfor:TF0545|3end_glucose-inhibited_division_protein_B_576453..576603_POSITIVE 369 109 69 87 43 tfor:TF1178|3end_sigma-54_dependent_DNA-binding_response_regulator_1266128..1266278_POSITIVE 369 107 61 87 30 tfor:TF0599|3end_hypothetical_protein_630130..630280_POSITIVE 362 112 73 67 35 tfor:TF2808|3end_bacterial_sugar_transferase_2999909..3000059_POSITIVE 362 57 11 79 36 tfor:TF1173|3end_ABC_transporter,_permease_component_1256651..1256801_POSITIVE 359 55 12 82 33 tfor:TF1738|3end_outer_membrane_protein_1866946..1867096_POSITIVE 352 107 62 119 64 tfor:TF0825|3end_hypothetical_protein_883850..884000_POSITIVE 350 84 41 45 12 tfor:TF0023|3end_possible_response_element_in_two_component_regulation_20233..20383_POSITIVE 349 110 61 91 48 tfor:TF2640|3end_hypothetical_protein_2809533..2809683_POSITIVE 348 109 62 52 9 tfor:TF0822|3end_hypothetical_protein_880764..880914_POSITIVE 347 54 11 102 56 tfor:TF2853|3end_2-C-methyl-D-erythritol_2,4-cyclodiphosphate_synthase_3040725..3040875_POSITIVE 344 48 1 69 24 tfor:TF2652|3end_hypothetical_protein_2822122..2822272_POSITIVE 344 110 64 68 7 tfor:TF2266|3end_transfer_region-related_protein,_TraQ_2434949..2435099_POSITIVE 342 115 73 146 97 tfor:TF0708|3end_possible_alkaline_phosphatase_753836..753986_POSITIVE 341 55 14 110 67 tfor:TF0001|3end_hypothetical_protein_158..308_POSITIVE