Origin IGS: atttaaattaaacctccttatgtaaattgtataataaagtattgcatagtcttttgcaaaagtcaacaccaattttttctttattgatttttttagcattttcctttatacttaatgaacggtagatattttaatagagagagctctgtaa .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ttacagagctctctctattaaaatatctaccgttcattaagtataaaggaaaatgctaaaaaaatcaataaagaaaaaattggtgttgacttttgcaaaagactatgcaatactttattatacaatttacataaggaggtttaatttaaat Mask Tandem Repeat Region ================================================ atttaaattaaacctccttatgtaaattgtataataaagtattgcatagtcttttgcaaaagtcaacaccaattttttctttattgatttttttagcattttcctttatacttaatgaacggtagatattttaatagagagagctctgtaa Find is-nt database================================================ Query_seq: TDE0146:TDE0147|TDE0146:TDE0147:amidohydrolase family protein:hypothetical protein:<-<-:168728..168878 151 atttaaattaaacctccttatgtaaattgtataataaagtattgcatagtcttttgcaaaagtcaacaccaattttttctttattgatttttttagcattttcctttatacttaatgaacggtagatattttaatagagagagctctgtaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE0146:TDE0147|TDE0146:TDE0147:amidohydrolase family protein:hypothetical protein:<-<-:168728..168878 151 atttaaattaaacctccttatgtaaattgtataataaagtattgcatagtcttttgcaaaagtcaacaccaattttttctttattgatttttttagcattttcctttatacttaatgaacggtagatattttaatagagagagctctgtaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE0146:TDE0147|TDE0146:TDE0147:amidohydrolase family protein:hypothetical protein:<-<-:168728..168878 151 atttaaattaaacctccttatgtaaattgtataataaagtattgcatagtcttttgcaaaagtcaacaccaattttttctttattgatttttttagcattttcctttatacttaatgaacggtagatattttaatagagagagctctgtaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 atttaaattaaacctccttatgtaaattgtataataaagtattgcatagtcttttgcaaaagtcaacaccaattttttctttattgatttttttagcattttcctttatacttaatgaacggtagatattttaatagagagagctctgtaa Predict ORF larger than 30AA ================================================ Protein_Len: 32 Strand: + Start: 27 End: 122 .......................... M Y N K V L H S L L Q K S T P I F S L L I F L A F S F I L N E R ............................. Protein_Len: 39 Strand: - Start: 11 End: 127 .......... V E K H L N Y L L T N C L R K C F D V G I K E K N I K K A N E K I S L S R Y M ........................ Protein_Len: 33 Strand: - Start: 1 End: 99 N L N F R R I Y I T Y Y L I A Y D K A F T L V L K K K I S K K L M .................................................... atttaaattaaacctccttatgtaaattgtataataaagtattgcatagtcttttgcaaaagtcaacaccaattttttctttattgatttttttagcattttcctttatacttaatgaacggtagatattttaatagagagagctctgtaa 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: 87 Start: 83 End: 112 ..................................................................................ATTGATTTTTTTAGCATTTTCCTTTATACT....................................... PromScan Matrix: RpoD-17 Strand: - Score: 84 Start: 31 End: 60 ..............................TTTGCAAAAGACTATGCAATACTTTATTAT........................................................................................... PromScan Matrix: RpoD-17 Strand: - Score: 82 Start: 38 End: 67 .....................................GTTGACTTTTGCAAAAGACTATGCAATACT.................................................................................... PromScan Matrix: RpoD-17 Strand: + Score: 81 Start: 6 End: 35 .....AATTAAACCTCCTTATGTAAATTGTATAAT.................................................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ atttaaattaaacctccttatgtaaattgtataataaagtattgcatagtcttttgcaaaagtcaacaccaattttttctttattgatttttttagcattttcctttatacttaatgaacggtagatattttaatagagagagctctgtaa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TDE0146:TDE0147|TDE0146:TDE0147:amidohydrolase family protein:hypothetical protein:<-<-:168728..168878 151 atttaaattaaacctccttatgtaaattgtataataaagtattgcatagtcttttgcaaaagtcaacaccaattttttctttattgatttttttagcattttcctttatacttaatgaacggtagatattttaatagagagagctctgtaa Intra-Species Hit: Count: 1 Min: 1 Max: 151 Len: 151 Subject: NC_002967_TDE0146_TDE0147|amidohydrolase family protein:hypothetical protein|NEGATIVE:NEGATIVE|[168728,168878]|151 HSP 1 e-value: 7.0E-33 bit: 141.0 Len: 71 Query Start:1 Query End:71 Subject Strand: POSITIVE Subject Start: 1 Subject End: 71 atttaaattaaacctccttatgtaaattgtataataaagtattgcatagtcttttgcaaaagtcaacacca................................................................................ atttaaattaaacctccttatgtaaattgtataataaagtattgcatagtcttttgcaaaagtcaacacca................................................................................ HSP 2 e-value: 1.0E-16 bit: 87.7 Len: 44 Query Start:108 Query End:151 Subject Strand: POSITIVE Subject Start: 108 Subject End: 151 ...........................................................................................................atacttaatgaacggtagatattttaatagagagagctctgtaa ...........................................................................................................atacttaatgaacggtagatattttaatagagagagctctgtaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUUAAAUUAAACCUCCUUAUGUAAAUUGUAUAAUAAAGUAUUGCAUAGUCUUUUGCAAAAGUCAACACCAAUUUUUUCUUUAUUGAUUUUUUUAGCAUUUUCCUUUAUACUUAAUGAACGGUAGAUAUUUUAAUAGAGAGAGCUCUGUAA ................(((.((((((((((.(((((...))))).)))))...))))).)))............(((((((((((((..(.((((.(.(((....(((....))).))).).)))).)..)))))))))))))........ (-17.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUACAGAGCUCUCUCUAUUAAAAUAUCUACCGUUCAUUAAGUAUAAAGGAAAAUGCUAAAAAAAUCAAUAAAGAAAAAAUUGGUGUUGACUUUUGCAAAAGACUAUGCAAUACUUUAUUAUACAAUUUACAUAAGGAGGUUUAAUUUAAAU .....((((.(((..(((((((.................(((((........))))).........(((((((........(((....))).(((((........)))))..)))))))......)))).)))..)))))))......... (-17.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 732 70 21 161 112 NC_002967:TDE0146|5end_amidohydrolase_family_protein_168637..168867_NEGATIVE 244 82 41 61 19 NC_002967:TDE1831|5end_hypothetical_protein_1865032..1865262_NEGATIVE 244 82 41 61 19 NC_002967:TDE1797|5end_hypothetical_protein_1836272..1836502_NEGATIVE 240 150 120 184 149 NC_002967:TDE1949|5end_ABC_transporter,_ATP-binding_protein_1966067..1966297_NEGATIVE 230 146 120 22 1 NC_002967:TDE2434|5end_polysaccharide_deacetylase_family_protein_2465657..2465887_NEGATIVE 227 93 59 152 113 NC_002967:TDE1311|5end_ABC_transporter,_ATP-binding/permease_protein_1347371..1347601_POSITIVE 225 74 35 111 68 NC_002967:TDE0557|5end_hypothetical_protein_592673..592903_NEGATIVE 216 59 15 150 99 NC_002967:TDE0637|5end_oligopeptide/dipeptide_ABC_transporter,_ATP-binding_protein_672491..672721_NEGATIVE 214 136 91 98 46 NC_002967:TDE1751|5end_ribosomal_protein_L21_1804142..1804372_NEGATIVE 211 89 43 77 26 NC_002967:TDE0893|5end_ABC_transporter,_ATP-binding_protein_909340..909570_POSITIVE 207 111 71 132 93 NC_002967:TDE1337|5end_hypothetical_protein_1374806..1375036_NEGATIVE 206 144 120 65 46 NC_002967:TDE2019|5end_hypothetical_protein_2040719..2040949_NEGATIVE 206 144 120 86 67 NC_002967:TDE1694|5end_hypothetical_protein_1749366..1749596_NEGATIVE 206 144 120 226 207 NC_002967:TDE1693|5end_hypothetical_protein_1749226..1749456_NEGATIVE 205 110 78 131 99 NC_002967:TDE1011|5end_hypothetical_protein_1038101..1038331_POSITIVE 204 60 14 151 103 NC_002967:TDE2648|5end_hypothetical_protein_2687777..2688007_NEGATIVE 203 53 11 140 95 NC_002967:TDE2055|5end_hemin-binding_protein_B_2083769..2083999_NEGATIVE 202 149 106 145 92 NC_002967:TDE2322|5end_flagellar_protein_FliL-related_protein_2357810..2358040_NEGATIVE 202 150 102 163 102 NC_002967:TDE1613|5end_hypothetical_protein_1661625..1661855_POSITIVE 199 86 41 111 63 NC_002967:TDE1346|5end_RNA_polymerase_sigma_factor_1385219..1385449_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 240 150 120 60 25 NC_002967:TDE1950|3end_membrane_lipoprotein_TmpC,_putative_1966191..1966341_NEGATIVE 227 93 59 41 2 NC_002967:TDE1310|3end_modulator_of_DNA_gyrase_family_protein_1347340..1347490_POSITIVE 211 89 43 96 45 NC_002967:TDE0892|3end_ABC_transporter,_permease_protein_909439..909589_POSITIVE 209 123 90 73 41 NC_002967:TDE0519|3end_hypothetical_protein_565438..565588_NEGATIVE 206 144 120 50 31 NC_002967:TDE2020|3end_YD_repeat_protein_2040734..2040884_NEGATIVE 205 110 78 121 89 NC_002967:TDE1010|3end_excinuclease_ABC,_A_subunit_1038171..1038321_POSITIVE 204 60 14 149 101 NC_002967:TDE2649|3end_ABC_transporter,_ATP-binding_protein_2687779..2687929_NEGATIVE 203 53 11 50 5 NC_002967:TDE2056|3end_outer_membrane_hemin-binding_protein_A_2083859..2084009_NEGATIVE 202 149 106 91 38 NC_002967:TDE2323|3end_mechanosensitive_ion_channel_family_protein_2357864..2358014_NEGATIVE 202 150 102 148 87 NC_002967:TDE1612|3end_phosphoribosyl_transferase_domain_protein_1661690..1661840_POSITIVE 199 86 41 118 70 NC_002967:TDE1345|3end_DNA_primase_1385306..1385456_POSITIVE 199 87 42 109 57 NC_002967:TDE0909|3end_type_II_DNA_modification_methyltransferase_M.TdeIII_928853..929003_POSITIVE 198 105 68 129 93 NC_002967:TDE2688|3end_hypothetical_protein_2728462..2728612_POSITIVE 198 72 42 146 114 NC_002967:TDE0540|3end_hypothetical_protein_582347..582497_POSITIVE 196 64 35 120 85 NC_002967:TDE0824|3end_lipoprotein,_putative_845226..845376_NEGATIVE 194 55 13 70 23 NC_002967:TDE2245|3end_DNA_topoisomerase_IV_subunit_B_2286137..2286287_POSITIVE 194 149 120 113 86 NC_002967:TDE2075|3end_GGDEF_domain/EAL_domain_protein_2101504..2101654_NEGATIVE 190 64 21 80 30 NC_002967:TDE1248|3end_hypothetical_protein_1283620..1283770_POSITIVE 190 57 15 151 102 NC_002967:TDE0638|3end_oligopeptide/dipeptide_ABC_transporter,_permease_protein_672488..672638_NEGATIVE 189 68 29 87 40 NC_002967:TDE2254|3end_hypothetical_protein_2291445..2291595_NEGATIVE