Origin IGS: agataagttaaaaccgttcaaaatatatggacttccaatattttgaacggttttttattaaatcaagcccttgagtgaagtaaagtttatatgttataataaaaaagtatgcagggtttcttgcggtaaatatttttagagaggtaaatt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aatttacctctctaaaaatatttaccgcaagaaaccctgcatacttttttattataacatataaactttacttcactcaagggcttgatttaataaaaaaccgttcaaaatattggaagtccatatattttgaacggttttaacttatct Mask Tandem Repeat Region ================================================ agataagttaaaaccgttcaaaatatatggacttccaatattttgaacggttttttattaaatcaagcccttgagtgaagtaaagtttatatgttataataaaaaagtatgcagggtttcttgcggtaaatatttttagagaggtaaatt Find is-nt database================================================ Query_seq: TDE0339:TDE0340|TDE0339:TDE0340:transcriptional regulator, TetR family:fructose-bisphosphate aldolase:->->:378629..378778 150 agataagttaaaaccgttcaaaatatatggacttccaatattttgaacggttttttattaaatcaagcccttgagtgaagtaaagtttatatgttataataaaaaagtatgcagggtttcttgcggtaaatatttttagagaggtaaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE0339:TDE0340|TDE0339:TDE0340:transcriptional regulator, TetR family:fructose-bisphosphate aldolase:->->:378629..378778 150 agataagttaaaaccgttcaaaatatatggacttccaatattttgaacggttttttattaaatcaagcccttgagtgaagtaaagtttatatgttataataaaaaagtatgcagggtttcttgcggtaaatatttttagagaggtaaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE0339:TDE0340|TDE0339:TDE0340:transcriptional regulator, TetR family:fructose-bisphosphate aldolase:->->:378629..378778 150 agataagttaaaaccgttcaaaatatatggacttccaatattttgaacggttttttattaaatcaagcccttgagtgaagtaaagtttatatgttataataaaaaagtatgcagggtttcttgcggtaaatatttttagagaggtaaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 agataagttaaaaccgttcaaaatatatggacttccaatattttgaacggttttttattaaatcaagcccttgagtgaagtaaagtttatatgttataataaaaaagtatgcagggtttcttgcggtaaatatttttagagaggtaaatt Predict ORF larger than 30AA ================================================ Protein_Len: 41 Strand: - Start: 11 End: 133 .......... F R E F Y I S K W Y K S R N K I L D L G Q T F Y L K Y T I I F F Y A P N R A T F M ................. agataagttaaaaccgttcaaaatatatggacttccaatattttgaacggttttttattaaatcaagcccttgagtgaagtaaagtttatatgttataataaaaaagtatgcagggtttcttgcggtaaatatttttagagaggtaaatt 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================================================ agataagttaaaaccgttcaaaatatatggacttccaatattttgaacggttttttattaaatcaagcccttgagtgaagtaaagtttatatgttataataaaaaagtatgcagggtttcttgcggtaaatatttttagagaggtaaatt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TDE0339:TDE0340|TDE0339:TDE0340:transcriptional regulator, TetR family:fructose-bisphosphate aldolase:->->:378629..378778 150 agataagttaaaaccgttcaaaatatatggacttccaatattttgaacggttttttattaaatcaagcccttgagtgaagtaaagtttatatgttataataaaaaagtatgcagggtttcttgcggtaaatatttttagagaggtaaatt Intra-Species Hit: Count: 1 Min: 1 Max: 150 Len: 150 Subject: NC_002967_TDE0339_TDE0340|transcriptional regulator, TetR family:fructose-bisphosphate aldolase|POSITIVE:POSITIVE|[378629,378778]|150 HSP 1 e-value: 5.0E-80 bit: 297.0 Len: 150 Query Start:1 Query End:150 Subject Strand: POSITIVE Subject Start: 1 Subject End: 150 agataagttaaaaccgttcaaaatatatggacttccaatattttgaacggttttttattaaatcaagcccttgagtgaagtaaagtttatatgttataataaaaaagtatgcagggtttcttgcggtaaatatttttagagaggtaaatt agataagttaaaaccgttcaaaatatatggacttccaatattttgaacggttttttattaaatcaagcccttgagtgaagtaaagtttatatgttataataaaaaagtatgcagggtttcttgcggtaaatatttttagagaggtaaatt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGAUAAGUUAAAACCGUUCAAAAUAUAUGGACUUCCAAUAUUUUGAACGGUUUUUUAUUAAAUCAAGCCCUUGAGUGAAGUAAAGUUUAUAUGUUAUAAUAAAAAAGUAUGCAGGGUUUCUUGCGGUAAAUAUUUUUAGAGAGGUAAAUU ...(((...(((((((((((((((((.(((....))))))))))))))))))))...)))......((((((....((((((...(((((........)))))......((((((....)))))).....))))))..))).)))..... (-38.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUUUACCUCUCUAAAAAUAUUUACCGCAAGAAACCCUGCAUACUUUUUUAUUAUAACAUAUAAACUUUACUUCACUCAAGGGCUUGAUUUAAUAAAAAACCGUUCAAAAUAUUGGAAGUCCAUAUAUUUUGAACGGUUUUAACUUAUCU ..................((((.....((((...((((.............(((((...)))))...............))))))))....)))).((((((((((((((((((((....))).)))))))))))))))))......... (-29.79) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 271 148 113 45 8 NC_002967:TDE2607|5end_hypothetical_protein_2648586..2648816_POSITIVE 265 142 102 106 65 NC_002967:TDE2103|5end_glycosyl_transferase,_group_2_family_protein_2128393..2128623_NEGATIVE 262 100 51 81 26 NC_002967:TDE1667|5end_translation_initiation_factor_IF-2B_subunit_alpha_1721051..1721281_NEGATIVE 249 78 31 134 83 NC_002967:TDE0292|5end_hypothetical_protein_322014..322244_NEGATIVE 245 59 13 71 23 NC_002967:TDE2216|5end_galactoside_ABC_transporter,_ATP-binding_protein_2256653..2256883_NEGATIVE 242 144 105 45 18 NC_002967:TDE1244|5end_TPR_domain_protein_1275823..1276053_POSITIVE 241 88 41 55 4 NC_002967:TDE2420|5end_DNA-directed_RNA_polymerase_beta'_subunit_2449234..2449464_NEGATIVE 235 146 106 177 132 NC_002967:TDE0144|5end_thiamine_ABC_transporter,_permease_protein_165007..165237_POSITIVE 225 78 32 139 97 NC_002967:TDE1051|5end_hypothetical_protein_1078496..1078726_NEGATIVE 224 79 38 46 9 NC_002967:TDE1068|5end_oligopeptide/dipeptide_ABC_transporter,_ATP-binding_protein_1096686..1096916_NEGATIVE 224 58 20 103 64 NC_002967:TDE0252|5end_hypothetical_protein_286263..286493_POSITIVE 223 150 110 168 135 NC_002967:TDE0487|5end_ABC_transporter,_ATP-binding_protein_544413..544643_NEGATIVE 223 145 107 194 154 NC_002967:TDE0403|5end_hypothetical_protein_454433..454663_POSITIVE 222 77 32 110 64 NC_002967:TDE2646|5end_ABC_transporter,_ATP-binding_protein,_putative_2685348..2685578_POSITIVE 215 90 48 180 130 NC_002967:TDE1930|5end_hypothetical_protein_1948556..1948786_NEGATIVE 212 144 110 48 11 NC_002967:TDE0417|5end_hypothetical_protein_469608..469838_NEGATIVE 211 124 81 136 91 NC_002967:TDE2381|5end_histidine_kinase-related_ATPase,_putative_2411069..2411299_POSITIVE 210 143 105 165 117 NC_002967:TDE0745|5end_glycine_reductase_complex_selenoprotein_GrdA_780287..780517_POSITIVE 210 70 25 148 88 NC_002967:TDE0425|5end_bacteriocin_ABC_transporter,_ATP-binding/permease,_putative_479700..479930_POSITIVE 209 128 91 177 140 NC_002967:TDE2530|5end_radical_SAM_domain_protein_2557362..2557592_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 463 54 11 81 38 NC_002967:TDE0339|3end_transcriptional_regulator,_TetR_family_378568..378718_POSITIVE 249 78 31 130 79 NC_002967:TDE0293|3end_MATE_efflux_family_protein_322018..322168_NEGATIVE 242 144 105 33 6 NC_002967:TDE1243|3end_hemolysin_C_1275891..1276041_POSITIVE 237 148 106 67 15 NC_002967:TDE0212|3end_hypothetical_protein_247258..247408_NEGATIVE 224 79 38 49 12 NC_002967:TDE1069|3end_oligopeptide/dipeptide_ABC_transporter,_permease_protein_1096683..1096833_NEGATIVE 222 77 32 126 80 NC_002967:TDE2645|3end_hypothetical_protein_2685444..2685594_POSITIVE 222 77 31 65 16 NC_002967:TDE1280|3end_hypothetical_protein_1315750..1315900_NEGATIVE 217 70 24 116 76 NC_002967:TDE2717|3end_phosphatidate_cytidylyltransferase,_putative_2773921..2774071_NEGATIVE 216 145 103 84 43 NC_002967:TDE0919|3end_hypothetical_protein_939125..939275_POSITIVE 213 123 84 143 108 NC_002967:TDE0417|3end_hypothetical_protein_469489..469639_NEGATIVE 211 124 81 49 4 NC_002967:TDE2380|3end_hypothetical_protein_2411062..2411212_POSITIVE 210 70 25 141 81 NC_002967:TDE0424|3end_bacteriocin-type_signal_domain_protein_479773..479923_POSITIVE 209 127 111 135 117 NC_002967:TDE2216|3end_galactoside_ABC_transporter,_ATP-binding_protein_2255160..2255310_NEGATIVE 207 88 41 56 2 NC_002967:TDE2718|3end_magnesium_transporter_2774552..2774702_NEGATIVE 207 137 106 69 42 NC_002967:TDE1047|3end_30S_ribosomal_protein_S12_1074551..1074701_POSITIVE 206 150 114 131 99 NC_002967:TDE2261|3end_hypothetical_protein_2297915..2298065_NEGATIVE 205 78 32 73 20 NC_002967:TDE2436|3end_hypothetical_protein_2467446..2467596_POSITIVE 203 128 84 136 88 NC_002967:TDE1262|3end_hypothetical_protein_1297213..1297363_NEGATIVE 200 150 112 104 70 NC_002967:TDE2139|3end_hypothetical_protein_2172897..2173047_POSITIVE 198 89 47 125 82 NC_002967:TDE1087|3end_cytidylate_kinase_1119313..1119463_POSITIVE