Origin IGS: agttttctcgctttataattttataaggaatattttagtatttttttgataataatgtcaaccgtcggggaaaatttggaaatgtcttttatttattgtaattatgtgatatgatagtgcaaattggattttaacctaactttaattttttatgggaggtgtattt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aaatacacctcccataaaaaattaaagttaggttaaaatccaatttgcactatcatatcacataattacaataaataaaagacatttccaaattttccccgacggttgacattattatcaaaaaaatactaaaatattccttataaaattataaagcgagaaaact Mask Tandem Repeat Region ================================================ agttttctcgctttataattttataaggaatattttagtatttttttgataataatgtcaaccgtcggggaaaatttggaaatgtcttttatttattgtaattatgtgatatgatagtgcaaattggattttaacctaactttaattttttatgggaggtgtattt Find is-nt database================================================ Query_seq: TDE0602:TDE0603|TDE0602:TDE0603:3-oxoacyl-(acyl-carrier-protein) synthase III:hypothetical protein:<-->:640862..641027 166 agttttctcgctttataattttataaggaatattttagtatttttttgataataatgtcaaccgtcggggaaaatttggaaatgtcttttatttattgtaattatgtgatatgatagtgcaaattggattttaacctaactttaattttttatgggaggtgtattt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE0602:TDE0603|TDE0602:TDE0603:3-oxoacyl-(acyl-carrier-protein) synthase III:hypothetical protein:<-->:640862..641027 166 agttttctcgctttataattttataaggaatattttagtatttttttgataataatgtcaaccgtcggggaaaatttggaaatgtcttttatttattgtaattatgtgatatgatagtgcaaattggattttaacctaactttaattttttatgggaggtgtattt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE0602:TDE0603|TDE0602:TDE0603:3-oxoacyl-(acyl-carrier-protein) synthase III:hypothetical protein:<-->:640862..641027 166 agttttctcgctttataattttataaggaatattttagtatttttttgataataatgtcaaccgtcggggaaaatttggaaatgtcttttatttattgtaattatgtgatatgatagtgcaaattggattttaacctaactttaattttttatgggaggtgtattt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 agttttctcgctttataattttataaggaatattttagtatttttttgataataatgtcaaccgtcggggaaaatttggaaatgtcttttatttattgtaattatgtgatatgatagtgcaaattggattttaacctaactttaattttttatgggaggtgtattt Predict ORF larger than 30AA ================================================ agttttctcgctttataattttataaggaatattttagtatttttttgataataatgtcaaccgtcggggaaaatttggaaatgtcttttatttattgtaattatgtgatatgatagtgcaaattggattttaacctaactttaattttttatgggaggtgtattt 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================================================ agttttctcgctttataattttataaggaatattttagtatttttttgataataatgtcaaccgtcggggaaaatttggaaatgtcttttatttattgtaattatgtgatatgatagtgcaaattggattttaacctaactttaattttttatgggaggtgtattt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TDE0602:TDE0603|TDE0602:TDE0603:3-oxoacyl-(acyl-carrier-protein) synthase III:hypothetical protein:<-->:640862..641027 166 agttttctcgctttataattttataaggaatattttagtatttttttgataataatgtcaaccgtcggggaaaatttggaaatgtcttttatttattgtaattatgtgatatgatagtgcaaattggattttaacctaactttaattttttatgggaggtgtattt Intra-Species Hit: Count: 1 Min: 1 Max: 166 Len: 166 Subject: NC_002967_TDE0602_TDE0603|3-oxoacyl-(acyl-carrier-protein) synthase III:hypothetical protein|NEGATIVE:POSITIVE|[640862,641027]|166 HSP 1 e-value: 6.0E-77 bit: 287.0 Len: 166 Query Start:1 Query End:166 Subject Strand: POSITIVE Subject Start: 1 Subject End: 166 agttttctcgctttataattttataaggaatattttagtannnnnnngataataatgtcaaccgtcggggaaaatttggaaatgtcttttatttattgtaattatgtgatatgatagtgcaaattggattttaacctaactttaattttttatgggaggtgtattt agttttctcgctttataattttataaggaatattttagtatttttttgataataatgtcaaccgtcggggaaaatttggaaatgtcttttatttattgtaattatgtgatatgatagtgcaaattggattttaacctaactttaattttttatgggaggtgtattt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGUUUUCUCGCUUUAUAAUUUUAUAAGGAAUAUUUUAGUAUUUUUUUGAUAAUAAUGUCAACCGUCGGGGAAAAUUUGGAAAUGUCUUUUAUUUAUUGUAAUUAUGUGAUAUGAUAGUGCAAAUUGGAUUUUAACCUAACUUUAAUUUUUUAUGGGAGGUGUAUUU .............((((.(((((((((((((.....(((......((((((....)))))).....((..((((((..(...(((...((((((((..((....))..))).))))).)))..)..))))))..))..)))...)))))))))))))..))))... (-24.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAUACACCUCCCAUAAAAAAUUAAAGUUAGGUUAAAAUCCAAUUUGCACUAUCAUAUCACAUAAUUACAAUAAAUAAAAGACAUUUCCAAAUUUUCCCCGACGGUUGACAUUAUUAUCAAAAAAAUACUAAAAUAUUCCUUAUAAAAUUAUAAAGCGAGAAAACU ......((((..(.............)..))))..........(((((....................................................((..((.......))..)).....................(((((....))))).)))))...... ( -6.72) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 755 110 61 201 152 NC_002967:TDE0602|5end_3-oxoacyl-(acyl-carrier-protein)_synthase_III_640771..641001_NEGATIVE 249 100 56 165 123 NC_002967:TDE2503|5end_hypothetical_protein_2527827..2528057_POSITIVE 243 48 1 144 95 NC_002967:TDE2208|5end_conserved_hypothetical_protein_TIGR00486_2246733..2246963_POSITIVE 241 109 63 69 25 NC_002967:TDE2470|5end_S-adenosylmethionine_synthetase_2493768..2493998_NEGATIVE 233 137 95 187 145 NC_002967:TDE2248|5end_HesA/MoeB/ThiF_family_protein_2287478..2287708_NEGATIVE 226 90 41 134 92 NC_002967:TDE0739|5end_hypothetical_protein_775790..776020_POSITIVE 222 91 63 47 19 NC_002967:TDE0709|5end_bifunctional_methionine_sulfoxide_reductase_A/B_protein_745434..745664_NEGATIVE 219 122 86 108 69 NC_002967:TDE1592|5end_ABC_transporter,_ATP-binding_protein_1639491..1639721_POSITIVE 217 90 56 142 108 NC_002967:TDE0054|5end_flagellar_biosynthesis_protein_62384..62614_POSITIVE 212 99 54 54 10 NC_002967:TDE2358|5end_hypothetical_protein_2394136..2394366_NEGATIVE 210 100 58 216 186 NC_002967:TDE0061|5end_fic_family_protein_68944..69174_NEGATIVE 208 159 124 125 92 NC_002967:TDE0627|5end_co-chaperone_protein_GrpE_659845..660075_POSITIVE 205 76 43 40 7 NC_002967:TDE2408|5end_hypothetical_protein_2435387..2435617_NEGATIVE 205 109 62 75 31 NC_002967:TDE0909|5end_type_II_DNA_modification_methyltransferase_M.TdeIII_927166..927396_POSITIVE 204 80 33 157 112 NC_002967:TDE2722|5end_carhohydrate_kinase,_FGGY_family_2780874..2781104_NEGATIVE 202 96 60 95 62 NC_002967:TDE1249|5end_hypothetical_protein_1283525..1283755_POSITIVE 201 122 85 138 99 NC_002967:TDE2164|5end_hypothetical_protein_2196955..2197185_NEGATIVE 200 77 33 192 146 NC_002967:TDE2691|5end_hypothetical_protein_2728838..2729068_POSITIVE 199 98 63 50 22 NC_002967:TDE1467|5end_HD_domain_protein_1516651..1516881_NEGATIVE 198 89 45 149 100 NC_002967:TDE1750|5end_hypothetical_protein_1803825..1804055_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 249 100 56 102 60 NC_002967:TDE2502|3end_sensor_histidine_kinase/response_regulator_2527844..2527994_POSITIVE 224 104 62 65 26 NC_002967:TDE0995|3end_hypothetical_protein_1022442..1022592_NEGATIVE 219 122 86 53 14 NC_002967:TDE1591|3end_inorganic_polyphosphate/ATP-NAD_kinase,_putative_1639516..1639666_POSITIVE 217 90 56 145 111 NC_002967:TDE0053|3end_flagellar_biosynthetic_protein_FliR_62467..62617_POSITIVE 212 70 24 96 42 NC_002967:TDE1476|3end_hypothetical_protein_1522445..1522595_POSITIVE 204 70 28 52 6 NC_002967:TDE0199|3end_hypothetical_protein_234199..234349_NEGATIVE 202 96 60 110 77 NC_002967:TDE1248|3end_hypothetical_protein_1283620..1283770_POSITIVE 201 122 85 40 1 NC_002967:TDE2165|3end_hydrogenase_accessory_protein_HypB_2197053..2197203_NEGATIVE 200 77 33 122 76 NC_002967:TDE2689|3end_hypothetical_protein_2728848..2728998_POSITIVE 200 95 54 97 59 NC_002967:TDE1771|3end_hypothetical_protein_1814579..1814729_NEGATIVE 198 89 45 143 94 NC_002967:TDE1751|3end_ribosomal_protein_L21_1803831..1803981_NEGATIVE 197 49 1 74 25 NC_002967:TDE1448|3end_glutamate_racemase,_putative_1494430..1494580_POSITIVE 196 79 37 108 65 NC_002967:TDE2031|3end_hypothetical_protein_2059069..2059219_NEGATIVE 195 87 41 52 6 NC_002967:TDE0621|3end_MATE_efflux_family_protein_654776..654926_POSITIVE 195 70 27 136 83 NC_002967:TDE0546|3end_hypothetical_protein_585819..585969_POSITIVE 194 99 62 77 47 NC_002967:TDE2325|3end_hypothetical_protein_2361177..2361327_POSITIVE 194 90 45 59 11 NC_002967:TDE1762|3end_hydrolase,_haloacid_dehalogenase-like_family_1810185..1810335_NEGATIVE 194 127 107 42 22 NC_002967:TDE0489|3end_hypothetical_protein_545156..545306_NEGATIVE 193 93 55 95 58 NC_002967:TDE0202|3end_hypothetical_protein_235870..236020_NEGATIVE 192 137 96 148 113 NC_002967:TDE0281|3end_hypothetical_protein_310293..310443_NEGATIVE