Origin IGS: gcggcctgttccccctgccctgttttcaaaatcgccttccatccatccgccgtaagaatccaccatcttttttacttcagtatcaaatttcattctttcctccgaaatattttttatactctaggggcatctctaaaaatcttgttggatttttagagatgccct .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 agggcatctctaaaaatccaacaagatttttagagatgcccctagagtataaaaaatatttcggaggaaagaatgaaatttgatactgaagtaaaaaagatggtggattcttacggcggatggatggaaggcgattttgaaaacagggcagggggaacaggccgc Mask Tandem Repeat Region ================================================ gcggcctgttccccctgccctgttttcaaaatcgccttccatccatccgccgtaagaatccaccatcttttttacttcagtatcaaatttcattctttcctccgaaatattttttatactctaggggcatctctaaaaatcttgttggatttttagagatgccct Find is-nt database================================================ Query_seq: TDE2205:TDE2206|TDE2205:TDE2206:enoate reductase, putative:hypothetical protein:<-<-:2244846..2245010 165 gcggcctgttccccctgccctgttttcaaaatcgccttccatccatccgccgtaagaatccaccatcttttttacttcagtatcaaatttcattctttcctccgaaatattttttatactctaggggcatctctaaaaatcttgttggatttttagagatgccct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE2205:TDE2206|TDE2205:TDE2206:enoate reductase, putative:hypothetical protein:<-<-:2244846..2245010 165 gcggcctgttccccctgccctgttttcaaaatcgccttccatccatccgccgtaagaatccaccatcttttttacttcagtatcaaatttcattctttcctccgaaatattttttatactctaggggcatctctaaaaatcttgttggatttttagagatgccct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE2205:TDE2206|TDE2205:TDE2206:enoate reductase, putative:hypothetical protein:<-<-:2244846..2245010 165 gcggcctgttccccctgccctgttttcaaaatcgccttccatccatccgccgtaagaatccaccatcttttttacttcagtatcaaatttcattctttcctccgaaatattttttatactctaggggcatctctaaaaatcttgttggatttttagagatgccct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gcggcctgttccccctgccctgttttcaaaatcgccttccatccatccgccgtaagaatccaccatcttttttacttcagtatcaaatttcattctttcctccgaaatattttttatactctaggggcatctctaaaaatcttgttggatttttagagatgccct Predict ORF larger than 30AA ================================================ Protein_Len: 41 Strand: + Start: 31 End: 153 .............................. M A F H P S A V R I H H L F Y F S I K F H S F L R N I F Y T L G A S L K I L L D F ............ Protein_Len: 53 Strand: + Start: 6 End: 164 ..... M F P L P C F Q N R L P S I R R K N P P S F L L Q Y Q I S F F P P K Y F L Y S R G I S K N L V G F L E M P . Protein_Len: 39 Strand: - Start: 1 End: 117 R G T G G A R N E F D G E M W G G Y S D V M K K V E T D F K M R E E S I N K M ................................................ gcggcctgttccccctgccctgttttcaaaatcgccttccatccatccgccgtaagaatccaccatcttttttacttcagtatcaaatttcattctttcctccgaaatattttttatactctaggggcatctctaaaaatcttgttggatttttagagatgccct 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================================================ gcggcctgttccccctgccctgttttcaaaatcgccttccatccatccgccgtaagaatccaccatcttttttacttcagtatcaaatttcattctttcctccgaaatattttttatactctaggggcatctctaaaaatcttgttggatttttagagatgccct Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TDE2205:TDE2206|TDE2205:TDE2206:enoate reductase, putative:hypothetical protein:<-<-:2244846..2245010 165 gcggcctgttccccctgccctgttttcaaaatcgccttccatccatccgccgtaagaatccaccatcttttttacttcagtatcaaatttcattctttcctccgaaatattttttatactctaggggcatctctaaaaatcttgttggatttttagagatgccct Intra-Species Hit: Count: 1 Min: 1 Max: 165 Len: 165 Subject: NC_002967_TDE2205_TDE2206|enoate reductase, putative:hypothetical protein|NEGATIVE:NEGATIVE|[2244846,2245010]|165 HSP 1 e-value: 7.0E-89 bit: 327.0 Len: 165 Query Start:1 Query End:165 Subject Strand: POSITIVE Subject Start: 1 Subject End: 165 gcggcctgttccccctgccctgttttcaaaatcgccttccatccatccgccgtaagaatccaccatcttttttacttcagtatcaaatttcattctttcctccgaaatattttttatactctaggggcatctctaaaaatcttgttggatttttagagatgccct gcggcctgttccccctgccctgttttcaaaatcgccttccatccatccgccgtaagaatccaccatcttttttacttcagtatcaaatttcattctttcctccgaaatattttttatactctaggggcatctctaaaaatcttgttggatttttagagatgccct Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GCGGCCUGUUCCCCCUGCCCUGUUUUCAAAAUCGCCUUCCAUCCAUCCGCCGUAAGAAUCCACCAUCUUUUUUACUUCAGUAUCAAAUUUCAUUCUUUCCUCCGAAAUAUUUUUUAUACUCUAGGGGCAUCUCUAAAAAUCUUGUUGGAUUUUUAGAGAUGCCCU ((((............((...............))...........)))).(((((((..........)))))))...(((((.(((.....(((........))).....))).)))))...(((((((((((((((((((....))))))))))))))))))) (-38.76) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGGGCAUCUCUAAAAAUCCAACAAGAUUUUUAGAGAUGCCCCUAGAGUAUAAAAAAUAUUUCGGAGGAAAGAAUGAAAUUUGAUACUGAAGUAAAAAAGAUGGUGGAUUCUUACGGCGGAUGGAUGGAAGGCGAUUUUGAAAACAGGGCAGGGGGAACAGGCCGC .(((((((((((((((((......)))))))))))))))))...............(((((((((..(((........)))..).))))))))...(((((.((...((((..((.....))...)))).)).)))))........(((...(....)..))).. (-45.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 1093 50 1 141 92 NC_002967:TDE2205|5end_enoate_reductase,_putative_2244755..2244985_NEGATIVE 474 50 1 99 45 NC_002967:TDE1249|5end_hypothetical_protein_1283525..1283755_POSITIVE 460 70 21 184 121 NC_002967:TDE1643|5end_PASTA_domain_protein_1694551..1694781_NEGATIVE 456 160 111 156 113 NC_002967:TDE1098|5end_hypothetical_protein_1133678..1133908_NEGATIVE 389 50 1 71 7 NC_002967:TDE0248|5end_hypothetical_protein_282068..282298_POSITIVE 373 160 125 205 170 NC_002967:TDE1073|5end_oligopeptide/dipeptide_ABC_transporter,_permease_protein_1103515..1103745_POSITIVE 361 79 33 187 140 NC_002967:TDE0865|5end_hypothetical_protein_887127..887357_POSITIVE 358 50 3 166 108 NC_002967:TDE0957|5end_glycerophosphoryl_diester_phosphodiesterase_family_protein_980252..980482_POSITIVE 353 47 1 185 126 NC_002967:TDE1492|5end_chemotaxis_protein_CheW_1537231..1537461_POSITIVE 340 50 2 131 78 NC_002967:TDE0853|5end_ribosomal_protein_S9_875473..875703_POSITIVE 324 49 1 47 10 NC_002967:TDE2268|5end_hypothetical_protein_2304959..2305189_NEGATIVE 324 55 14 134 82 NC_002967:TDE2103|5end_glycosyl_transferase,_group_2_family_protein_2128393..2128623_NEGATIVE 322 48 1 231 181 NC_002967:TDE2436|5end_hypothetical_protein_2466602..2466832_POSITIVE 322 50 1 84 30 NC_002967:TDE1547|5end_ribonuclease_HII_1591124..1591354_POSITIVE 322 56 12 52 6 NC_002967:TDE1139|5end_hypothetical_protein_1168615..1168845_NEGATIVE 322 108 61 105 61 NC_002967:TDE0300|5end_leucyl_aminopeptidase_330843..331073_POSITIVE 313 50 1 193 144 NC_002967:TDE1982|5end_hypothetical_protein_1992984..1993214_NEGATIVE 311 59 12 69 6 NC_002967:TDE1501|5end_pyruvate_phosphate_dikinase_1548041..1548271_POSITIVE 311 57 12 108 69 NC_002967:TDE0915|5end_hypothetical_protein_933320..933550_NEGATIVE 309 127 83 135 76 NC_002967:TDE0652|5end_hypothetical_protein_688177..688407_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 474 50 1 114 60 NC_002967:TDE1248|3end_hypothetical_protein_1283620..1283770_POSITIVE 459 66 21 148 94 NC_002967:TDE1644|3end_methionyl-tRNA_formyltransferase_1694578..1694728_NEGATIVE 456 160 111 98 55 NC_002967:TDE1099|3end_acetyltransferase,_GNAT_family_1133736..1133886_NEGATIVE 438 152 120 35 4 NC_002967:TDE1091|3end_hypothetical_protein_1123017..1123167_NEGATIVE 413 160 126 76 42 NC_002967:TDE2464|3end_hypothetical_protein_2489369..2489519_POSITIVE 376 49 2 139 95 NC_002967:TDE2527|3end_hypothetical_protein_2555449..2555599_NEGATIVE 373 160 125 46 11 NC_002967:TDE1072|3end_lipoprotein,_putative_1103436..1103586_POSITIVE 349 36 1 144 109 NC_002967:TDE1491|3end_chemotaxis_protein_CheA_1537294..1537444_POSITIVE 340 50 2 105 52 NC_002967:TDE0852|3end_50S_ribosomal_protein_L13_875527..875677_POSITIVE 324 49 1 75 38 NC_002967:TDE2269|3end_hypothetical_protein_2304931..2305081_NEGATIVE 322 50 1 84 30 NC_002967:TDE1546|3end_hypothetical_protein_1591204..1591354_POSITIVE 307 60 16 139 94 NC_002967:TDE0864|3end_phosphohexose_mutase_family_protein_887177..887327_POSITIVE 304 50 2 74 24 NC_002967:TDE0739|3end_hypothetical_protein_776028..776178_POSITIVE 300 50 4 133 80 NC_002967:TDE0241|3end_hypothetical_protein_274701..274851_NEGATIVE 299 39 1 44 13 NC_002967:TDE0154|3end_adenylate/guanylate_cyclase_catalytic_domain_protein_176208..176358_NEGATIVE 296 50 1 125 80 NC_002967:TDE1450|3end_MutS2_family_protein_1497856..1498006_POSITIVE 296 50 1 117 66 NC_002967:TDE0992|3end_5-formyltetrahydrofolate_cyclo-ligase_family_protein_1018321..1018471_NEGATIVE 292 50 4 64 15 NC_002967:TDE1235|3end_hypothetical_protein_1269557..1269707_POSITIVE 284 39 2 132 102 NC_002967:TDE0411|3end_adenylate/guanylate_cyclase_catalytic_domain_protein_465095..465245_POSITIVE 279 48 3 147 106 NC_002967:TDE0956|3end_hypothetical_protein_980330..980480_POSITIVE