Origin IGS: atgataccctccgaacgatattttagggagtatatcatatttttaggaaaaaatataggggcggaagatggccttaagtgaagttgaatctactaaattttactatttattgcaaacaatttctataataattatgaaaggggaaaagtttttctctttttaaaaaaattatgggagttgaaaa .........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 ttttcaactcccataatttttttaaaaagagaaaaacttttcccctttcataattattatagaaattgtttgcaataaatagtaaaatttagtagattcaacttcacttaaggccatcttccgcccctatattttttcctaaaaatatgatatactccctaaaatatcgttcggagggtatcat Mask Tandem Repeat Region ================================================ atgataccctccgaacgatattttagggagtatatcatatttttaggaaaaaatataggggcggaagatggccttaagtgaagttgaatctactaaattttactatttattgcaaacaatttctataataattatgaaaggggaaaagtttttctctttttaaaaaaattatgggagttgaaaa Find is-nt database================================================ Query_seq: TDE2718:TDE2719|TDE2718:TDE2719:magnesium transporter:hypothetical protein:<-->:2776001..2776184 184 atgataccctccgaacgatattttagggagtatatcatatttttaggaaaaaatataggggcggaagatggccttaagtgaagttgaatctactaaattttactatttattgcaaacaatttctataataattatgaaaggggaaaagtttttctctttttaaaaaaattatgggagttgaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE2718:TDE2719|TDE2718:TDE2719:magnesium transporter:hypothetical protein:<-->:2776001..2776184 184 atgataccctccgaacgatattttagggagtatatcatatttttaggaaaaaatataggggcggaagatggccttaagtgaagttgaatctactaaattttactatttattgcaaacaatttctataataattatgaaaggggaaaagtttttctctttttaaaaaaattatgggagttgaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE2718:TDE2719|TDE2718:TDE2719:magnesium transporter:hypothetical protein:<-->:2776001..2776184 184 atgataccctccgaacgatattttagggagtatatcatatttttaggaaaaaatataggggcggaagatggccttaagtgaagttgaatctactaaattttactatttattgcaaacaatttctataataattatgaaaggggaaaagtttttctctttttaaaaaaattatgggagttgaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 atgataccctccgaacgatattttagggagtatatcatatttttaggaaaaaatataggggcggaagatggccttaagtgaagttgaatctactaaattttactatttattgcaaacaatttctataataattatgaaaggggaaaagtttttctctttttaaaaaaattatgggagttgaaaa Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: + Start: 68 End: 160 ................................................................... M A L S E V E S T K F Y Y L L Q T I S I I I M K G E K F F S F ........................ atgataccctccgaacgatattttagggagtatatcatatttttaggaaaaaatataggggcggaagatggccttaagtgaagttgaatctactaaattttactatttattgcaaacaatttctataataattatgaaaggggaaaagtttttctctttttaaaaaaattatgggagttgaaaa Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ PromScan Matrix: RpoD-17 Strand: - Score: 81 Start: 97 End: 126 ................................................................................................ATAGAAATTGTTTGCAATAAATAGTAAAAT.......................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ atgataccctccgaacgatattttagggagtatatcatatttttaggaaaaaatataggggcggaagatggccttaagtgaagttgaatctactaaattttactatttattgcaaacaatttctataataattatgaaaggggaaaagtttttctctttttaaaaaaattatgggagttgaaaa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TDE2718:TDE2719|TDE2718:TDE2719:magnesium transporter:hypothetical protein:<-->:2776001..2776184 184 atgataccctccgaacgatattttagggagtatatcatatttttaggaaaaaatataggggcggaagatggccttaagtgaagttgaatctactaaattttactatttattgcaaacaatttctataataattatgaaaggggaaaagtttttctctttttaaaaaaattatgggagttgaaaa Intra-Species Hit: Count: 1 Min: 1 Max: 184 Len: 184 Subject: NC_002967_TDE2718_TDE2719|magnesium transporter:hypothetical protein|NEGATIVE:POSITIVE|[2776001,2776184]|184 HSP 1 e-value: 1.0E-87 bit: 323.0 Len: 184 Query Start:1 Query End:184 Subject Strand: POSITIVE Subject Start: 1 Subject End: 184 atgataccctccgaacgatattttagggagtatatcatatttttaggaaaaaatataggggcggaagatggccttaagtgaagttgaatctactaaattttactatttattgcaaacaatttctataataattatgaaaggggaaaagtttttctctttttnnnnnnnttatgggagttgaaaa atgataccctccgaacgatattttagggagtatatcatatttttaggaaaaaatataggggcggaagatggccttaagtgaagttgaatctactaaattttactatttattgcaaacaatttctataataattatgaaaggggaaaagtttttctctttttaaaaaaattatgggagttgaaaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUGAUACCCUCCGAACGAUAUUUUAGGGAGUAUAUCAUAUUUUUAGGAAAAAAUAUAGGGGCGGAAGAUGGCCUUAAGUGAAGUUGAAUCUACUAAAUUUUACUAUUUAUUGCAAACAAUUUCUAUAAUAAUUAUGAAAGGGGAAAAGUUUUUCUCUUUUUAAAAAAAUUAUGGGAGUUGAAAA ((((((..((((..............))))..)))))).................(((((.((.....)).)))))(((((((((..........)))))))))............(((((((((((((..((.((((((((((((....)))))))))))).))..))))))))))))).... (-44.14) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUUCAACUCCCAUAAUUUUUUUAAAAAGAGAAAAACUUUUCCCCUUUCAUAAUUAUUAUAGAAAUUGUUUGCAAUAAAUAGUAAAAUUUAGUAGAUUCAACUUCACUUAAGGCCAUCUUCCGCCCCUAUAUUUUUUCCUAAAAAUAUGAUAUACUCCCUAAAAUAUCGUUCGGAGGGUAUCAU ............................(((((((..........................(((.((((((((..(((((......))))))))))..))).)))......(((........)))......)))))))........((((((..((((..............))))..)))))) (-21.64) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 846 90 41 181 132 NC_002967:TDE2718|5end_magnesium_transporter_2775910..2776140_NEGATIVE 521 143 103 212 172 NC_002967:TDE0670|5end_ATP-dependent_protease_La_707938..708168_POSITIVE 514 147 103 196 152 NC_002967:TDE0861|5end_tyrosyl-tRNA_synthetase_883098..883328_NEGATIVE 480 160 111 58 9 NC_002967:TDE2099|5end_hypothetical_protein_2125027..2125257_POSITIVE 450 147 101 227 180 NC_002967:TDE0164|5end_hypothetical_protein_193998..194228_NEGATIVE 443 160 113 136 89 NC_002967:TDE1692|5end_hypothetical_protein_1748293..1748523_POSITIVE 427 147 101 181 134 NC_002967:TDE0402|5end_hypothetical_protein_454352..454582_NEGATIVE 338 180 135 160 114 NC_002967:TDE2707|5end_hypothetical_protein_2753947..2754177_POSITIVE 329 128 96 187 155 NC_002967:TDE1990|5end_ATP-dependent_helicase,_DinG_family_2008496..2008726_NEGATIVE 327 180 135 160 114 NC_002967:TDE0165|5end_hypothetical_protein_194122..194352_POSITIVE 293 180 135 160 115 NC_002967:TDE0862|5end_hypothetical_protein_883192..883422_POSITIVE 289 75 33 159 121 NC_002967:TDE0012|5end_carbon_starvation_protein_CstA,_putative_16168..16398_POSITIVE 273 180 135 161 116 NC_002967:TDE0007|5end_hypothetical_protein_9874..10104_POSITIVE 272 86 52 75 41 NC_002967:TDE1864|5end_crossover_junction_endodeoxyribonuclease_RuvC_1889108..1889338_NEGATIVE 260 65 25 216 172 NC_002967:TDE2254|5end_hypothetical_protein_2291642..2291872_NEGATIVE 259 159 113 138 94 NC_002967:TDE2136|5end_hypothetical_protein_2165659..2165889_NEGATIVE 256 180 138 42 1 NC_002967:TDE2302|5end_HD_domain_protein_2341790..2342020_POSITIVE 249 122 95 231 204 NC_002967:TDE2706|5end_hypothetical_protein_2753793..2754023_NEGATIVE 248 95 54 197 158 NC_002967:TDE2061|5end_hypothetical_protein_2087792..2088022_NEGATIVE 248 159 118 137 96 NC_002967:TDE0049|5end_hypothetical_protein_59089..59319_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 329 128 96 49 17 NC_002967:TDE1991|3end_hypothetical_protein_2008634..2008784_NEGATIVE 314 95 56 53 14 NC_002967:TDE2339|3end_leucyl-tRNA_synthetase_2377501..2377651_POSITIVE 289 75 33 46 8 NC_002967:TDE0011|3end_alkyl_hydroperoxide_reductase/peroxiredoxin_16135..16285_POSITIVE 280 68 27 85 47 NC_002967:TDE0128|3end_HAMP_domain/GGDEF_domain/EAL_domain_protein_148725..148875_POSITIVE 272 86 52 42 8 NC_002967:TDE1865|3end_peptidase,_M16_family_1889141..1889291_NEGATIVE 270 85 56 149 124 NC_002967:TDE1057|3end_hypothetical_protein_1086105..1086255_NEGATIVE 258 86 45 110 58 NC_002967:TDE1262|3end_hypothetical_protein_1297213..1297363_NEGATIVE 250 80 31 78 34 NC_002967:TDE2230|3end_hypothetical_protein_2269453..2269603_POSITIVE 250 90 46 53 1 NC_002967:TDE0189|3end_hypothetical_protein_225672..225822_NEGATIVE 239 77 33 84 31 NC_002967:TDE0194|3end_hypothetical_protein_230739..230889_NEGATIVE 237 67 23 70 26 NC_002967:TDE1453|3end_alpha-galactosidase_1501516..1501666_POSITIVE 235 100 59 90 38 NC_002967:TDE2479|3end_hypothetical_protein_2502901..2503051_NEGATIVE 233 88 46 58 5 NC_002967:TDE0417|3end_hypothetical_protein_469489..469639_NEGATIVE 231 90 49 74 20 NC_002967:TDE2712|3end_hypothetical_protein_2769615..2769765_POSITIVE 231 47 7 66 31 NC_002967:TDE2179|3end_voltage-gated_chloride_channel_2210614..2210764_POSITIVE 227 79 37 96 41 NC_002967:TDE2402|3end_radical_SAM_domain_protein_2428664..2428814_POSITIVE 226 49 6 83 41 NC_002967:TDE0693|3end_phosphomethylpyrimidine_kinase_730831..730981_POSITIVE 225 81 58 53 22 NC_002967:TDE1002|3end_hypothetical_protein_1028445..1028595_NEGATIVE 221 97 57 98 54 NC_002967:TDE2722|3end_carhohydrate_kinase,_FGGY_family_2779666..2779816_NEGATIVE 220 75 46 128 97 NC_002967:TDE0111|3end_hypothetical_protein_132114..132264_POSITIVE