Origin IGS: gactagccctgtaacgaaaagaatatgacataattgttattatcaaaaatataccgatggctgcgaggaaaatatttctgatgaaattccgtttaccgtaccggaaggatgg .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ccatccttccggtacggtaaacggaatttcatcagaaatattttcctcgcagccatcggtatatttttgataataacaattatgtcatattcttttcgttacagggctagtc Mask Tandem Repeat Region ================================================ gactagccctgtaacgaaaagaatatgacataattgttattatcaaaaatataccgatggctgcgaggaaaatatttctgatgaaattccgtttaccgtaccggaaggatgg Find is-nt database================================================ Query_seq: TDE2739:TDE2740|TDE2739:TDE2740:hypothetical protein:type I restriction-modification system, S subunit, truncation:->->:2795230..2795341 112 gactagccctgtaacgaaaagaatatgacataattgttattatcaaaaatataccgatggctgcgaggaaaatatttctgatgaaattccgtttaccgtaccggaaggatgg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE2739:TDE2740|TDE2739:TDE2740:hypothetical protein:type I restriction-modification system, S subunit, truncation:->->:2795230..2795341 112 gactagccctgtaacgaaaagaatatgacataattgttattatcaaaaatataccgatggctgcgaggaaaatatttctgatgaaattccgtttaccgtaccggaaggatgg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE2739:TDE2740|TDE2739:TDE2740:hypothetical protein:type I restriction-modification system, S subunit, truncation:->->:2795230..2795341 112 gactagccctgtaacgaaaagaatatgacataattgttattatcaaaaatataccgatggctgcgaggaaaatatttctgatgaaattccgtttaccgtaccggaaggatgg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gactagccctgtaacgaaaagaatatgacataattgttattatcaaaaatataccgatggctgcgaggaaaatatttctgatgaaattccgtttaccgtaccggaaggatgg Predict ORF larger than 30AA ================================================ gactagccctgtaacgaaaagaatatgacataattgttattatcaaaaatataccgatggctgcgaggaaaatatttctgatgaaattccgtttaccgtaccggaaggatgg 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================================================ gactagccctgtaacgaaaagaatatgacataattgttattatcaaaaatataccgatggctgcgaggaaaatatttctgatgaaattccgtttaccgtaccggaaggatgg Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TDE2739:TDE2740|TDE2739:TDE2740:hypothetical protein:type I restriction-modification system, S subunit, truncation:->->:2795230..2795341 112 gactagccctgtaacgaaaagaatatgacataattgttattatcaaaaatataccgatggctgcgaggaaaatatttctgatgaaattccgtttaccgtaccggaaggatgg Intra-Species Hit: Count: 1 Min: 1 Max: 112 Len: 112 Subject: NC_002967_TDE2739_TDE2740|hypothetical protein:type I restriction-modification system, S subunit, truncation|POSITIVE:POSITIVE|[2795230,2795341]|112 HSP 1 e-value: 2.0E-57 bit: 222.0 Len: 112 Query Start:1 Query End:112 Subject Strand: POSITIVE Subject Start: 1 Subject End: 112 gactagccctgtaacgaaaagaatatgacataattgttattatcaaaaatataccgatggctgcgaggaaaatatttctgatgaaattccgtttaccgtaccggaaggatgg gactagccctgtaacgaaaagaatatgacataattgttattatcaaaaatataccgatggctgcgaggaaaatatttctgatgaaattccgtttaccgtaccggaaggatgg Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GACUAGCCCUGUAACGAAAAGAAUAUGACAUAAUUGUUAUUAUCAAAAAUAUACCGAUGGCUGCGAGGAAAAUAUUUCUGAUGAAAUUCCGUUUACCGUACCGGAAGGAUGG ...(((((..(((...........((((((....))))))...........)))....)))))...(((....(((((....)))))))).....((((.((....)))))) (-22.35) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CCAUCCUUCCGGUACGGUAAACGGAAUUUCAUCAGAAAUAUUUUCCUCGCAGCCAUCGGUAUAUUUUUGAUAAUAACAAUUAUGUCAUAUUCUUUUCGUUACAGGGCUAGUC ..........(((...((((.(((((....(((((((((((...((...........)).)))))))))))....(((....)))........)))))))))...))).... (-17.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 289 110 62 75 41 NC_002967:TDE1184|5end_hypothetical_protein_1211334..1211564_POSITIVE 264 104 61 48 11 NC_002967:TDE2346|5end_elongation_factor_Ts_2383429..2383659_NEGATIVE 261 105 62 176 127 NC_002967:TDE0520|5end_hypothetical_protein_566661..566891_NEGATIVE 256 110 87 45 20 NC_002967:TDE0882|5end_hypothetical_protein_901449..901679_POSITIVE 255 110 75 103 69 NC_002967:TDE1183|5end_ABC_transporter,_ATP-binding_protein_1210612..1210842_POSITIVE 255 110 61 58 4 NC_002967:TDE0156|5end_adenylate/guanylate_cyclase_catalytic_domain_protein_183571..183801_NEGATIVE 254 109 61 59 1 NC_002967:TDE0675|5end_hypothetical_protein_713994..714224_POSITIVE 254 96 54 73 28 NC_002967:TDE0542|5end_acetyltransferase,_GNAT_family_582580..582810_POSITIVE 254 100 53 65 27 NC_002967:TDE0241|5end_hypothetical_protein_275303..275533_NEGATIVE 246 98 54 193 143 NC_002967:TDE2282|5end_tRNA_synthetase,_class_II_family_protein_2319665..2319895_NEGATIVE 244 99 52 75 32 NC_002967:TDE1488|5end_glyceraldehyde-3-phosphate_dehydrogenase,_type_I_1532653..1532883_NEGATIVE 242 80 44 184 146 NC_002967:TDE0566|5end_hypothetical_protein_597185..597415_POSITIVE 240 105 87 176 154 NC_002967:TDE2768|5end_flagellar_hook_protein_2822510..2822740_NEGATIVE 240 109 83 32 3 NC_002967:TDE1087|5end_cytidylate_kinase_1118670..1118900_POSITIVE 240 103 71 59 26 NC_002967:TDE0746|5end_iron_compound_ABC_transporter,_ATP-binding_protein,_putative_782109..782339_NEGATIVE 239 110 61 58 18 NC_002967:TDE2007|5end_ABC_transporter,_ATP-binding/permease_protein_2026819..2027049_POSITIVE 238 97 57 169 133 NC_002967:TDE0248|5end_hypothetical_protein_282068..282298_POSITIVE 235 100 54 221 182 NC_002967:TDE2343|5end_phosphatidate_cytidylyltransferase_2381240..2381470_NEGATIVE 234 109 61 227 175 NC_002967:TDE0741|5end_hypothetical_protein_778158..778388_NEGATIVE 233 110 90 176 156 NC_002967:TDE2127|5end_vapC_protein,_putative_2159763..2159993_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 262 108 61 133 81 NC_002967:TDE0992|3end_5-formyltetrahydrofolate_cyclo-ligase_family_protein_1018321..1018471_NEGATIVE 261 105 62 81 32 NC_002967:TDE0521|3end_carboxylesterase_family_protein_566756..566906_NEGATIVE 258 107 62 45 2 NC_002967:TDE0535|3end_ABC_transporter,_ATP-binding_protein_578101..578251_POSITIVE 255 110 75 89 55 NC_002967:TDE1182|3end_hypothetical_protein_1210678..1210828_POSITIVE 254 109 61 62 4 NC_002967:TDE0674|3end_hypothetical_protein_714077..714227_POSITIVE 254 96 54 49 4 NC_002967:TDE0541|3end_hypothetical_protein_582636..582786_POSITIVE 254 100 53 54 16 NC_002967:TDE0242|3end_hypothetical_protein_275314..275464_NEGATIVE 243 98 54 129 81 NC_002967:TDE0485|3end_hypothetical_protein_542006..542156_NEGATIVE 242 80 44 149 111 NC_002967:TDE0565|3end_hypothetical_protein_597230..597380_POSITIVE 240 103 71 72 39 NC_002967:TDE0747|3end_iron_compound_ABC_transporter,_permease_protein,_putative_782096..782246_NEGATIVE 239 100 54 75 27 NC_002967:TDE2210|3end_hypothetical_protein_2249394..2249544_NEGATIVE 232 95 54 93 52 NC_002967:TDE1059|3end_hypothetical_protein_1086498..1086648_NEGATIVE 231 105 61 62 20 NC_002967:TDE0709|3end_bifunctional_methionine_sulfoxide_reductase_A/B_protein_744481..744631_NEGATIVE 227 109 87 74 51 NC_002967:TDE2242|3end_antigen,_putative_2279569..2279719_NEGATIVE 227 100 53 85 36 NC_002967:TDE0743|3end_thioredoxin_reductase_779751..779901_POSITIVE 224 103 65 150 107 NC_002967:TDE0754|3end_hypothetical_protein_794507..794657_POSITIVE 223 108 62 139 98 NC_002967:TDE2458|3end_hypothetical_protein_2485849..2485999_POSITIVE 216 106 69 50 12 NC_002967:TDE1427|3end_glycosyl_transferase,_group_1_family_protein_1471190..1471340_POSITIVE 216 109 80 37 13 NC_002967:TDE1375|3end_pantetheine-phosphate_adenylyltransferase_1418643..1418793_POSITIVE 216 85 55 151 123 NC_002967:TDE0685|3end_oxidoreductase,_short_chain_dehydrogenase/reductase_family_721823..721973_NEGATIVE