Origin IGS: aggggatttccccctttggaaaccccgacttttttcaaattttactatttattgcaaactttgcgtacaataattatgaaaaggggaaaatttttcttctctaaaaaaaattattaacgaggcttaattt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aaattaagcctcgttaataattttttttagagaagaaaaattttccccttttcataattattgtacgcaaagtttgcaataaatagtaaaatttgaaaaaagtcggggtttccaaagggggaaatcccct Mask Tandem Repeat Region ================================================ aggggatttccccctttggaaaccccgacttttttcaaattttactatttattgcaaactttgcgtacaataattatgaaaaggggaaaatttttcttctctaaaaaaaattattaacgaggcttaattt Find is-nt database================================================ Query_seq: TDE0402:TDE0403|TDE0402:TDE0403:hypothetical protein:hypothetical protein:<-->:454443..454572 130 aggggatttccccctttggaaaccccgacttttttcaaattttactatttattgcaaactttgcgtacaataattatgaaaaggggaaaatttttcttctctaaaaaaaattattaacgaggcttaattt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE0402:TDE0403|TDE0402:TDE0403:hypothetical protein:hypothetical protein:<-->:454443..454572 130 aggggatttccccctttggaaaccccgacttttttcaaattttactatttattgcaaactttgcgtacaataattatgaaaaggggaaaatttttcttctctaaaaaaaattattaacgaggcttaattt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE0402:TDE0403|TDE0402:TDE0403:hypothetical protein:hypothetical protein:<-->:454443..454572 130 aggggatttccccctttggaaaccccgacttttttcaaattttactatttattgcaaactttgcgtacaataattatgaaaaggggaaaatttttcttctctaaaaaaaattattaacgaggcttaattt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aggggatttccccctttggaaaccccgacttttttcaaattttactatttattgcaaactttgcgtacaataattatgaaaaggggaaaatttttcttctctaaaaaaaattattaacgaggcttaattt Predict ORF larger than 30AA ================================================ Protein_Len: 32 Strand: + Start: 6 End: 101 ..... M S P F G N P D F F Q I L L F I A N F A Y N N Y E K G K I F L L ............................. Protein_Len: 33 Strand: + Start: 16 End: 114 ............... M E T P T F F K F Y Y L L Q T L R T I I M K R G K F F F S K K N Y ................ aggggatttccccctttggaaaccccgacttttttcaaattttactatttattgcaaactttgcgtacaataattatgaaaaggggaaaatttttcttctctaaaaaaaattattaacgaggcttaattt 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================================================ aggggatttccccctttggaaaccccgacttttttcaaattttactatttattgcaaactttgcgtacaataattatgaaaaggggaaaatttttcttctctaaaaaaaattattaacgaggcttaattt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TDE0402:TDE0403|TDE0402:TDE0403:hypothetical protein:hypothetical protein:<-->:454443..454572 130 aggggatttccccctttggaaaccccgacttttttcaaattttactatttattgcaaactttgcgtacaataattatgaaaaggggaaaatttttcttctctaaaaaaaattattaacgaggcttaattt Intra-Species Hit: Count: 1 Min: 1 Max: 130 Len: 130 Subject: NC_002967_TDE0402_TDE0403|hypothetical protein:hypothetical protein|NEGATIVE:POSITIVE|[454443,454572]|130 HSP 1 e-value: 8.0E-54 bit: 210.0 Len: 130 Query Start:1 Query End:130 Subject Strand: POSITIVE Subject Start: 1 Subject End: 130 aggggatttccccctttggaaaccccgacttttttcaaattttactatttattgcaaactttgcgtacaataattatgaaaaggggaaaatttttcttctctnnnnnnnnttattaacgaggcttaattt aggggatttccccctttggaaaccccgacttttttcaaattttactatttattgcaaactttgcgtacaataattatgaaaaggggaaaatttttcttctctaaaaaaaattattaacgaggcttaattt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGGGGAUUUCCCCCUUUGGAAACCCCGACUUUUUUCAAAUUUUACUAUUUAUUGCAAACUUUGCGUACAAUAAUUAUGAAAAGGGGAAAAUUUUUCUUCUCUAAAAAAAAUUAUUAACGAGGCUUAAUUU .((((.(((((......)))))))))..((((((((((((.....((((...((((.....))))...))))))).)))))))))..(((((...((((...................))))...))))) (-22.51) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAUUAAGCCUCGUUAAUAAUUUUUUUUAGAGAAGAAAAAUUUUCCCCUUUUCAUAAUUAUUGUACGCAAAGUUUGCAAUAAAUAGUAAAAUUUGAAAAAAGUCGGGGUUUCCAAAGGGGGAAAUCCCCU .....((((((((......((((((((((((...(((((.........)))))....((((((((.((...)).)))))))).........)))))))))))))))))))).....(((((....))))) (-29.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 836 50 1 141 92 NC_002967:TDE0402|5end_hypothetical_protein_454352..454582_NEGATIVE 478 98 52 56 8 NC_002967:TDE2099|5end_hypothetical_protein_2125027..2125257_POSITIVE 460 44 1 139 98 NC_002967:TDE1892|5end_hypothetical_protein_1912065..1912295_POSITIVE 434 28 1 138 113 NC_002967:TDE2265|5end_hypothetical_protein_2302165..2302395_POSITIVE 402 27 1 206 182 NC_002967:TDE0741|5end_hypothetical_protein_778158..778388_NEGATIVE 398 28 1 221 196 NC_002967:TDE1058|5end_hypothetical_protein_1086366..1086596_NEGATIVE 338 100 69 206 176 NC_002967:TDE0861|5end_tyrosyl-tRNA_synthetase_883098..883328_NEGATIVE 317 90 41 227 178 NC_002967:TDE0164|5end_hypothetical_protein_193998..194228_NEGATIVE 305 18 1 231 214 NC_002967:TDE0401|5end_adenylate/guanylate_cyclase_catalytic_domain_protein_454230..454460_NEGATIVE 296 98 66 134 100 NC_002967:TDE1692|5end_hypothetical_protein_1748293..1748523_POSITIVE 295 88 45 215 172 NC_002967:TDE0670|5end_ATP-dependent_protease_La_707938..708168_POSITIVE 291 28 1 140 112 NC_002967:TDE0570|5end_hypothetical_protein_600169..600399_POSITIVE 290 80 37 229 186 NC_002967:TDE2718|5end_magnesium_transporter_2775910..2776140_NEGATIVE 289 39 1 204 169 NC_002967:TDE0619|5end_methyl-accepting_chemotaxis_protein_650318..650548_POSITIVE 263 36 6 201 170 NC_002967:TDE1621|5end_hypothetical_protein_1670743..1670973_NEGATIVE 253 36 9 177 146 NC_002967:TDE1304|5end_hypothetical_protein_1339716..1339946_POSITIVE 250 36 1 168 123 NC_002967:TDE2737|5end_hypothetical_protein_2791870..2792100_POSITIVE 249 48 4 91 57 NC_002967:TDE0614|5end_precorrin-4_C11-methyltransferase_647987..648217_POSITIVE 247 34 1 155 119 NC_002967:TDE1946|5end_hypothetical_protein_1962494..1962724_NEGATIVE 245 36 7 193 167 NC_002967:TDE2735|5end_surface_antigen,_putative_2790154..2790384_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 460 44 1 44 3 NC_002967:TDE1891|3end_hypothetical_protein_1912050..1912200_POSITIVE 398 28 1 89 64 NC_002967:TDE1059|3end_hypothetical_protein_1086498..1086648_NEGATIVE 291 28 1 53 25 NC_002967:TDE0569|3end_hypothetical_protein_600162..600312_POSITIVE 284 31 2 92 66 NC_002967:TDE2582|3end_GGDEF_domain_protein_2616164..2616314_POSITIVE 283 73 40 151 118 NC_002967:TDE2099|3end_hypothetical_protein_2125229..2125379_POSITIVE 268 39 1 81 36 NC_002967:TDE1981|3end_hypothetical_protein_1992437..1992587_POSITIVE 263 36 6 124 93 NC_002967:TDE1622|3end_hypothetical_protein_1670820..1670970_NEGATIVE 248 32 1 48 17 NC_002967:TDE1386|3end_methyl-accepting_chemotaxis_protein_1426856..1427006_POSITIVE 247 34 1 132 96 NC_002967:TDE1947|3end_ABC_transporter,_permease_protein_1962517..1962667_NEGATIVE 247 28 1 69 43 NC_002967:TDE1296|3end_ribosomal_subunit_interface_protein,_putative_1333464..1333614_NEGATIVE 241 31 1 150 114 NC_002967:TDE1149|3end_hypothetical_protein_1186426..1186576_NEGATIVE 239 56 11 129 87 NC_002967:TDE0381|3end_hypothetical_protein_434461..434611_POSITIVE 222 95 52 63 18 NC_002967:TDE0869|3end_hypothetical_protein_892662..892812_POSITIVE 219 36 1 150 122 NC_002967:TDE1987|3end_hypothetical_protein_2002802..2002952_POSITIVE 218 31 1 151 121 NC_002967:TDE2527|3end_hypothetical_protein_2555449..2555599_NEGATIVE 218 79 51 53 23 NC_002967:TDE2167|3end_pyridine_nucleotide-disulphide_oxidoreductase_family_protein_2198103..2198253_NEGATIVE 218 37 2 102 62 NC_002967:TDE0471|3end_BNR_domain_protein_526657..526807_NEGATIVE 218 125 97 34 3 NC_002967:TDE0168|3end_transcriptional_regulator,_GntR_family_196667..196817_NEGATIVE 214 30 1 38 11 NC_002967:TDE2309|3end_sigma-54_dependent_transcriptional_regulator,_putative_2346558..2346708_NEGATIVE 213 28 1 126 95 NC_002967:TDE2707|3end_hypothetical_protein_2754929..2755079_POSITIVE