Origin IGS: taatgaaattgaggagtaataggcactaaaaaactatatttttatagatagtcttgaaaatgacgtatgtagttttatttagaaagaggtattaatggtgattatattagaggtcacctctaaaaacttactttaaaaaag .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 cttttttaaagtaagtttttagaggtgacctctaatataatcaccattaatacctctttctaaataaaactacatacgtcattttcaagactatctataaaaatatagttttttagtgcctattactcctcaatttcatta Mask Tandem Repeat Region ================================================ taatgaaattgaggagtaataggcactaaaaaactatatttttatagatagtcttgaaaatgacgtatgtagttttatttagaaagaggtattaatggtgattatattagaggtcacctctaaaaacttactttaaaaaag Find is-nt database================================================ Query_seq: TDE1570:TDE1571|TDE1570:TDE1571:hypothetical protein:hypothetical protein:->->:1620667..1620807 141 taatgaaattgaggagtaataggcactaaaaaactatatttttatagatagtcttgaaaatgacgtatgtagttttatttagaaagaggtattaatggtgattatattagaggtcacctctaaaaacttactttaaaaaag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE1570:TDE1571|TDE1570:TDE1571:hypothetical protein:hypothetical protein:->->:1620667..1620807 141 taatgaaattgaggagtaataggcactaaaaaactatatttttatagatagtcttgaaaatgacgtatgtagttttatttagaaagaggtattaatggtgattatattagaggtcacctctaaaaacttactttaaaaaag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE1570:TDE1571|TDE1570:TDE1571:hypothetical protein:hypothetical protein:->->:1620667..1620807 141 taatgaaattgaggagtaataggcactaaaaaactatatttttatagatagtcttgaaaatgacgtatgtagttttatttagaaagaggtattaatggtgattatattagaggtcacctctaaaaacttactttaaaaaag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taatgaaattgaggagtaataggcactaaaaaactatatttttatagatagtcttgaaaatgacgtatgtagttttatttagaaagaggtattaatggtgattatattagaggtcacctctaaaaacttactttaaaaaag Predict ORF larger than 30AA ================================================ taatgaaattgaggagtaataggcactaaaaaactatatttttatagatagtcttgaaaatgacgtatgtagttttatttagaaagaggtattaatggtgattatattagaggtcacctctaaaaacttactttaaaaaag 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================================================ taatgaaattgaggagtaataggcactaaaaaactatatttttatagatagtcttgaaaatgacgtatgtagttttatttagaaagaggtattaatggtgattatattagaggtcacctctaaaaacttactttaaaaaag Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 70 HP_score: -3.9 Tail_Score: -5.17353 Start: 34 End: 47 Full_Region: cattttcaagactat ctata aaaa tatag ttttttagtgcctat .................................ctataaaaatatag.............................................................................................. Find igs database================================================ Query_seq: TDE1570:TDE1571|TDE1570:TDE1571:hypothetical protein:hypothetical protein:->->:1620667..1620807 141 taatgaaattgaggagtaataggcactaaaaaactatatttttatagatagtcttgaaaatgacgtatgtagttttatttagaaagaggtattaatggtgattatattagaggtcacctctaaaaacttactttaaaaaag Intra-Species Hit: Count: 1 Min: 1 Max: 141 Len: 141 Subject: NC_002967_TDE1570_TDE1571|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[1620667,1620807]|141 HSP 1 e-value: 1.0E-74 bit: 280.0 Len: 141 Query Start:1 Query End:141 Subject Strand: POSITIVE Subject Start: 1 Subject End: 141 taatgaaattgaggagtaataggcactaaaaaactatatttttatagatagtcttgaaaatgacgtatgtagttttatttagaaagaggtattaatggtgattatattagaggtcacctctaaaaacttactttaaaaaag taatgaaattgaggagtaataggcactaaaaaactatatttttatagatagtcttgaaaatgacgtatgtagttttatttagaaagaggtattaatggtgattatattagaggtcacctctaaaaacttactttaaaaaag Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUGAAAUUGAGGAGUAAUAGGCACUAAAAAACUAUAUUUUUAUAGAUAGUCUUGAAAAUGACGUAUGUAGUUUUAUUUAGAAAGAGGUAUUAAUGGUGAUUAUAUUAGAGGUCACCUCUAAAAACUUACUUUAAAAAAG ........((((((...........((((((((((((((...........(((........)))..)))))))))..)))))...(((...(((..(((((((........)))))))..)))...))).))))))..... (-23.52) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUUUUUUAAAGUAAGUUUUUAGAGGUGACCUCUAAUAUAAUCACCAUUAAUACCUCUUUCUAAAUAAAACUACAUACGUCAUUUUCAAGACUAUCUAUAAAAAUAUAGUUUUUUAGUGCCUAUUACUCCUCAAUUUCAUUA .........(((((....(((((((...))))))).........((((((...........................(((........)))...(((((....)))))....))))))....))))).............. (-15.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 236 100 51 142 97 NC_002967:TDE0099|5end_adenine-specific_DNA_modification_methyltransferase_115648..115878_POSITIVE 208 107 64 149 101 NC_002967:TDE0196|5end_hypothetical_protein_232571..232801_POSITIVE 199 86 43 98 48 NC_002967:TDE2315|5end_conserved_hypothetical_protein_TIGR00044_2352272..2352502_POSITIVE 195 129 81 217 167 NC_002967:TDE1577|5end_lipoprotein,_putative_1624509..1624739_POSITIVE 192 129 81 111 56 NC_002967:TDE1987|5end_hypothetical_protein_2002312..2002542_POSITIVE 189 119 81 81 48 NC_002967:TDE1466|5end_oxygen-independent_coproporphyrinogen_III_oxidase,_putative_1514262..1514492_POSITIVE 188 120 76 138 91 NC_002967:TDE1756|5end_hypothetical_protein_1807810..1808040_NEGATIVE 185 134 98 118 69 NC_002967:TDE2169|5end_hypothetical_protein_2201037..2201267_POSITIVE 184 49 8 231 190 NC_002967:TDE1297|5end_LysM_domain/M23/M37_peptidase_domain_protein_1334782..1335012_NEGATIVE 184 110 66 209 162 NC_002967:TDE0740|5end_hypothetical_protein_775987..776217_POSITIVE 180 54 11 59 16 NC_002967:TDE0200|5end_tetrapyrrole_methylase_family_protein_234621..234851_POSITIVE 179 65 22 226 174 NC_002967:TDE0211|5end_ABC_transporter,_permease_protein,_cysTW_family_247286..247516_NEGATIVE 178 136 107 143 113 NC_002967:TDE2245|5end_DNA_topoisomerase_IV_subunit_B_2284240..2284470_POSITIVE 178 36 1 174 143 NC_002967:TDE1323|5end_hypothetical_protein_1360760..1360990_POSITIVE 177 54 13 207 157 NC_002967:TDE1730|5end_glycosyl_hydrolase,_family_2_1785545..1785775_NEGATIVE 175 118 78 70 23 NC_002967:TDE2456|5end_hypothetical_protein_2484573..2484803_NEGATIVE 175 57 20 154 109 NC_002967:TDE1234|5end_hypothetical_protein_1269316..1269546_NEGATIVE 174 90 45 174 110 NC_002967:TDE0181|5end_methyl-accepting_chemotaxis_protein_215077..215307_NEGATIVE 173 49 9 83 34 NC_002967:TDE0985|5end_oligopeptide/dipeptide_ABC_transporter,_periplasmic_peptide-binding_protein,_putative_1011037..1011267_POSITIVE 171 115 77 46 11 NC_002967:TDE0953|5end_branched-chain_amino_acid_ABC_transporter,_permease_protein_976863..977093_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 225 129 84 65 22 NC_002967:TDE0185|3end_ABC_transporter,_ATP-binding_protein,_HlyB_family_222335..222485_POSITIVE 208 138 93 115 63 NC_002967:TDE1112|3end_adenylate_kinase_1147627..1147777_POSITIVE 199 86 43 125 75 NC_002967:TDE2314|3end_hypothetical_protein_2352379..2352529_POSITIVE 189 119 81 84 51 NC_002967:TDE1465|3end_signal_peptidase_I,_putative_1514345..1514495_POSITIVE 187 121 83 71 36 NC_002967:TDE1945|3end_hypothetical_protein_1961119..1961269_NEGATIVE 184 129 96 70 39 NC_002967:TDE1264|3end_hypothetical_protein_1298152..1298302_NEGATIVE 178 136 107 143 113 NC_002967:TDE2244|3end_hypothetical_protein_2284320..2284470_POSITIVE 177 80 40 91 49 NC_002967:TDE2717|3end_phosphatidate_cytidylyltransferase,_putative_2773921..2774071_NEGATIVE 176 129 84 59 14 NC_002967:TDE2464|3end_hypothetical_protein_2489369..2489519_POSITIVE 174 128 81 64 14 NC_002967:TDE1263|3end_hypothetical_protein_1298136..1298286_POSITIVE 174 90 45 117 53 NC_002967:TDE0182|3end_ABC_transporter,_ATP-binding_protein_215134..215284_NEGATIVE 171 115 77 49 14 NC_002967:TDE0952|3end_ABC_transporter,_ATP-binding_protein_976946..977096_POSITIVE 169 55 11 102 62 NC_002967:TDE2534|3end_endonuclease_III_2560856..2561006_POSITIVE 169 135 107 69 37 NC_002967:TDE1624|3end_glycine_dehydrogenase_subunit_2_1672071..1672221_NEGATIVE 169 120 72 55 11 NC_002967:TDE0800|3end_acetyltransferase,_GNAT_family_823454..823604_NEGATIVE 168 128 97 47 9 NC_002967:TDE0186|3end_hypothetical_protein_222373..222523_NEGATIVE 165 121 86 37 6 NC_002967:TDE1003|3end_hypothetical_protein_1029325..1029475_POSITIVE 165 59 12 78 35 NC_002967:TDE0325|3end_hypothetical_protein_358733..358883_POSITIVE 163 129 111 45 27 NC_002967:TDE2270|3end_methyl-accepting_chemotaxis_protein_2306280..2306430_NEGATIVE 163 70 23 104 60 NC_002967:TDE1923|3end_hypothetical_protein_1941513..1941663_NEGATIVE