Origin IGS: tttttgtgtgcttttagaataaacattttggctatatattattgtaaatgatggatggaaaagggaatgcacaagttgaagagaatcttaaagatttccagtaataccagtaaaataggtggggtgt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 acaccccacctattttactggtattactggaaatctttaagattctcttcaacttgtgcattcccttttccatccatcatttacaataatatatagccaaaatgtttattctaaaagcacacaaaaa Mask Tandem Repeat Region ================================================ tttttgtgtgcttttagaataaacattttggctatatattattgtaaatgatggatggaaaagggaatgcacaagttgaagagaatcttaaagatttccagtaataccagtaaaataggtggggtgt Find is-nt database================================================ Query_seq: TDE1562:TDE1563|TDE1562:TDE1563:hypothetical protein:hypothetical protein:->->:1615706..1615832 127 tttttgtgtgcttttagaataaacattttggctatatattattgtaaatgatggatggaaaagggaatgcacaagttgaagagaatcttaaagatttccagtaataccagtaaaataggtggggtgt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE1562:TDE1563|TDE1562:TDE1563:hypothetical protein:hypothetical protein:->->:1615706..1615832 127 tttttgtgtgcttttagaataaacattttggctatatattattgtaaatgatggatggaaaagggaatgcacaagttgaagagaatcttaaagatttccagtaataccagtaaaataggtggggtgt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE1562:TDE1563|TDE1562:TDE1563:hypothetical protein:hypothetical protein:->->:1615706..1615832 127 tttttgtgtgcttttagaataaacattttggctatatattattgtaaatgatggatggaaaagggaatgcacaagttgaagagaatcttaaagatttccagtaataccagtaaaataggtggggtgt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tttttgtgtgcttttagaataaacattttggctatatattattgtaaatgatggatggaaaagggaatgcacaagttgaagagaatcttaaagatttccagtaataccagtaaaataggtggggtgt Predict ORF larger than 30AA ================================================ tttttgtgtgcttttagaataaacattttggctatatattattgtaaatgatggatggaaaagggaatgcacaagttgaagagaatcttaaagatttccagtaataccagtaaaataggtggggtgt 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================================================ tttttgtgtgcttttagaataaacattttggctatatattattgtaaatgatggatggaaaagggaatgcacaagttgaagagaatcttaaagatttccagtaataccagtaaaataggtggggtgt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TDE1562:TDE1563|TDE1562:TDE1563:hypothetical protein:hypothetical protein:->->:1615706..1615832 127 tttttgtgtgcttttagaataaacattttggctatatattattgtaaatgatggatggaaaagggaatgcacaagttgaagagaatcttaaagatttccagtaataccagtaaaataggtggggtgt Intra-Species Hit: Count: 1 Min: 1 Max: 127 Len: 127 Subject: NC_002967_TDE1562_TDE1563|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[1615706,1615832]|127 HSP 1 e-value: 2.0E-66 bit: 252.0 Len: 127 Query Start:1 Query End:127 Subject Strand: POSITIVE Subject Start: 1 Subject End: 127 tttttgtgtgcttttagaataaacattttggctatatattattgtaaatgatggatggaaaagggaatgcacaagttgaagagaatcttaaagatttccagtaataccagtaaaataggtggggtgt tttttgtgtgcttttagaataaacattttggctatatattattgtaaatgatggatggaaaagggaatgcacaagttgaagagaatcttaaagatttccagtaataccagtaaaataggtggggtgt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUUUGUGUGCUUUUAGAAUAAACAUUUUGGCUAUAUAUUAUUGUAAAUGAUGGAUGGAAAAGGGAAUGCACAAGUUGAAGAGAAUCUUAAAGAUUUCCAGUAAUACCAGUAAAAUAGGUGGGGUGU ......(((((...((((((....)))))).((((.((((((.....)))))).))))..........))))).((((..(..((((.....))))..)..)))).(((.(......).)))..... (-17.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACACCCCACCUAUUUUACUGGUAUUACUGGAAAUCUUUAAGAUUCUCUUCAACUUGUGCAUUCCCUUUUCCAUCCAUCAUUUACAAUAAUAUAUAGCCAAAAUGUUUAUUCUAAAAGCACACAAAAA .......(((.........)))......(..((((.....))))..).......(((((....................((((.(((((.((((.......))))))))).)))).)))))...... ( -8.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 285 102 61 159 118 NC_002967:TDE2620|5end_hypothetical_protein_2661538..2661768_POSITIVE 234 98 57 229 182 NC_002967:TDE0798|5end_transporter,_putative_822557..822787_NEGATIVE 220 83 55 178 152 NC_002967:TDE2743|5end_type_I_restriction-modification_system,_S_subunit,_truncation_2797670..2797900_POSITIVE 215 96 62 189 158 NC_002967:TDE1078|5end_metallo-beta-lactamase_family_protein_1109739..1109969_POSITIVE 213 87 42 68 27 NC_002967:TDE1759|5end_hypothetical_protein_1809164..1809394_NEGATIVE 211 90 41 230 182 NC_002967:TDE2590|5end_hypothetical_protein_2626482..2626712_POSITIVE 204 106 66 229 194 NC_002967:TDE1273|5end_oligopeptide/dipeptide_ABC_transporter,_peptide-binding_protein_1308624..1308854_NEGATIVE 203 55 26 145 115 NC_002967:TDE0835|5end_NADH-ubiquinone_oxidoreductase_855526..855756_NEGATIVE 202 85 41 57 9 NC_002967:TDE2357|5end_iron_compound_ABC_transporter,_permease_protein_2392038..2392268_POSITIVE 200 94 51 121 68 NC_002967:TDE1451|5end_hypothetical_protein_1498968..1499198_NEGATIVE 199 100 55 191 144 NC_002967:TDE2339|5end_leucyl-tRNA_synthetase_2374845..2375075_POSITIVE 198 100 51 84 29 NC_002967:TDE2057|5end_hypothetical_protein_2085343..2085573_NEGATIVE 198 68 24 133 95 NC_002967:TDE0435|5end_ATP-dependent_DNA_helicase,_RecQ_family_491261..491491_NEGATIVE 196 94 59 58 26 NC_002967:TDE0584|5end_permease,_putative_623134..623364_NEGATIVE 195 81 41 164 129 NC_002967:TDE2311|5end_hypothetical_protein_2348238..2348468_POSITIVE 195 83 46 208 161 NC_002967:TDE1307|5end_hypothetical_protein_1340954..1341184_POSITIVE 193 33 7 207 186 NC_002967:TDE1143|5end_hypothetical_protein_1181834..1182064_NEGATIVE 192 85 52 231 195 NC_002967:TDE0101|5end_alpha-amylase_family_protein_121161..121391_NEGATIVE 191 87 51 53 23 NC_002967:TDE0411|5end_adenylate/guanylate_cyclase_catalytic_domain_protein_462931..463161_POSITIVE 190 66 24 176 127 NC_002967:TDE2063|5end_ferrous_iron_transport_protein_B_2091264..2091494_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 285 102 61 115 74 NC_002967:TDE2619|3end_RNA_methyltransferase,_TrmA_family,_putative_2661574..2661724_POSITIVE 258 84 51 151 122 NC_002967:TDE0834|3end_Na(+)-translocating_NADH-quinone_reductase,_E_subunit_854291..854441_NEGATIVE 248 108 63 148 108 NC_002967:TDE2565|3end_hypothetical_protein_2590392..2590542_NEGATIVE 243 99 56 62 4 NC_002967:TDE2717|3end_phosphatidate_cytidylyltransferase,_putative_2773921..2774071_NEGATIVE 224 87 42 71 26 NC_002967:TDE2389|3end_cobalamin_biosynthesis_protein_CobD_2418348..2418498_NEGATIVE 217 61 25 83 46 NC_002967:TDE1825|3end_hypothetical_protein_1857250..1857400_NEGATIVE 215 96 62 50 19 NC_002967:TDE1077|3end_hypothetical_protein_1109680..1109830_POSITIVE 209 95 51 46 3 NC_002967:TDE1727|3end_hypothetical_protein_1780774..1780924_NEGATIVE 203 55 26 144 114 NC_002967:TDE0836|3end_Na(+)-translocating_NADH-quinone_reductase,_C_subunit_855527..855677_NEGATIVE 200 95 55 41 1 NC_002967:TDE2356|3end_iron_compound_ABC_transporter,_periplasmic_iron_compound-binding_protein,_putative_2392098..2392248_POSITIVE 198 100 51 73 18 NC_002967:TDE2058|3end_hypothetical_protein_2085354..2085504_NEGATIVE 198 68 24 70 32 NC_002967:TDE0436|3end_Recombination_protein_O_491324..491474_NEGATIVE 196 94 59 54 22 NC_002967:TDE0585|3end_hypothetical_protein_623138..623288_NEGATIVE 195 81 41 102 67 NC_002967:TDE2310|3end_hypothetical_protein_2348256..2348406_POSITIVE 192 90 49 80 29 NC_002967:TDE0696|3end_hypothetical_protein_734210..734360_POSITIVE 191 87 51 41 11 NC_002967:TDE0410|3end_peptidase,_M48_family_462999..463149_POSITIVE 191 47 4 83 43 NC_002967:TDE0246|3end_transcriptional_regulator,_TetR_family_281096..281246_NEGATIVE 187 57 11 145 102 NC_002967:TDE1583|3end_hypothetical_protein_1632007..1632157_POSITIVE 184 89 43 90 43 NC_002967:TDE2382|3end_cobinamide_kinase/cobinamide_phosphate_guanyltransferase_2412909..2413059_POSITIVE 183 80 51 46 22 NC_002967:TDE2483|3end_hypothetical_protein_2505880..2506030_NEGATIVE