Origin IGS: caataaatataccttgattttttctcataagtacgattaaaatattctttgtcaggatattgttgtagcctgatttctatcttttttccggtctgcttgattaaaggccctataatatgttagagtaggcca .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tggcctactctaacatattatagggcctttaatcaagcagaccggaaaaaagatagaaatcaggctacaacaatatcctgacaaagaatattttaatcgtacttatgagaaaaaatcaaggtatatttattg Mask Tandem Repeat Region ================================================ caataaatataccttgattttttctcataagtacgattaaaatattctttgtcaggatattgttgtagcctgatttctatcttttttccggtctgcttgattaaaggccctataatatgttagagtaggcca Find is-nt database================================================ Query_seq: TDE1374:TDE1375|TDE1374:TDE1375:hypothetical protein:pantetheine-phosphate adenylyltransferase:<-->:1418089..1418220 132 caataaatataccttgattttttctcataagtacgattaaaatattctttgtcaggatattgttgtagcctgatttctatcttttttccggtctgcttgattaaaggccctataatatgttagagtaggcca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE1374:TDE1375|TDE1374:TDE1375:hypothetical protein:pantetheine-phosphate adenylyltransferase:<-->:1418089..1418220 132 caataaatataccttgattttttctcataagtacgattaaaatattctttgtcaggatattgttgtagcctgatttctatcttttttccggtctgcttgattaaaggccctataatatgttagagtaggcca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE1374:TDE1375|TDE1374:TDE1375:hypothetical protein:pantetheine-phosphate adenylyltransferase:<-->:1418089..1418220 132 caataaatataccttgattttttctcataagtacgattaaaatattctttgtcaggatattgttgtagcctgatttctatcttttttccggtctgcttgattaaaggccctataatatgttagagtaggcca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 caataaatataccttgattttttctcataagtacgattaaaatattctttgtcaggatattgttgtagcctgatttctatcttttttccggtctgcttgattaaaggccctataatatgttagagtaggcca Predict ORF larger than 30AA ================================================ Protein_Len: 38 Strand: - Start: 3 End: 116 .. Y I Y R S K K E Y T R N F Y E K D P Y Q Q L R I E I K K G T Q K I L P G I M ................ caataaatataccttgattttttctcataagtacgattaaaatattctttgtcaggatattgttgtagcctgatttctatcttttttccggtctgcttgattaaaggccctataatatgttagagtaggcca 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================================================ caataaatataccttgattttttctcataagtacgattaaaatattctttgtcaggatattgttgtagcctgatttctatcttttttccggtctgcttgattaaaggccctataatatgttagagtaggcca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TDE1374:TDE1375|TDE1374:TDE1375:hypothetical protein:pantetheine-phosphate adenylyltransferase:<-->:1418089..1418220 132 caataaatataccttgattttttctcataagtacgattaaaatattctttgtcaggatattgttgtagcctgatttctatcttttttccggtctgcttgattaaaggccctataatatgttagagtaggcca Intra-Species Hit: Count: 1 Min: 1 Max: 132 Len: 132 Subject: NC_002967_TDE1374_TDE1375|hypothetical protein:pantetheine-phosphate adenylyltransferase|NEGATIVE:POSITIVE|[1418089, 1418220]|132 HSP 1 e-value: 3.0E-69 bit: 262.0 Len: 132 Query Start:1 Query End:132 Subject Strand: POSITIVE Subject Start: 1 Subject End: 132 caataaatataccttgattttttctcataagtacgattaaaatattctttgtcaggatattgttgtagcctgatttctatcttttttccggtctgcttgattaaaggccctataatatgttagagtaggcca caataaatataccttgattttttctcataagtacgattaaaatattctttgtcaggatattgttgtagcctgatttctatcttttttccggtctgcttgattaaaggccctataatatgttagagtaggcca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CAAUAAAUAUACCUUGAUUUUUUCUCAUAAGUACGAUUAAAAUAUUCUUUGUCAGGAUAUUGUUGUAGCCUGAUUUCUAUCUUUUUUCCGGUCUGCUUGAUUAAAGGCCCUAUAAUAUGUUAGAGUAGGCCA ...........................((((((.((((((((........((((((.(((....))).))))))........))))...))))))))))......(((((((........)))....)))). (-21.49) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGGCCUACUCUAACAUAUUAUAGGGCCUUUAAUCAAGCAGACCGGAAAAAAGAUAGAAAUCAGGCUACAACAAUAUCCUGACAAAGAAUAUUUUAAUCGUACUUAUGAGAAAAAAUCAAGGUAUAUUUAUUG .(((((................)))))........................((((((..(((((.((......)).))))).................((((((.(((.......))))))))).)))))). (-18.59) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 894 110 61 201 152 NC_002967:TDE1374|5end_hypothetical_protein_1417998..1418228_NEGATIVE 322 98 51 190 142 NC_002967:TDE0573|5end_hypothetical_protein_604681..604911_POSITIVE 292 89 45 198 150 NC_002967:TDE2681|5end_hypothetical_protein_2721407..2721637_NEGATIVE 288 90 42 230 190 NC_002967:TDE2417|5end_nitroimidazole_resistance_protein,_putative_2443288..2443518_NEGATIVE 278 110 64 212 169 NC_002967:TDE0643|5end_peptidyl-tRNA_hydrolase_679827..680057_NEGATIVE 275 89 45 101 53 NC_002967:TDE0119|5end_flagellar_protein_FliS_137498..137728_NEGATIVE 274 98 55 198 142 NC_002967:TDE1287|5end_transcription-repair_coupling_factor_1322738..1322968_POSITIVE 273 110 67 72 27 NC_002967:TDE2550|5end_hypothetical_protein_2576215..2576445_NEGATIVE 273 129 82 130 80 NC_002967:TDE1885|5end_hypothetical_protein_1906857..1907087_POSITIVE 272 108 62 95 48 NC_002967:TDE1844|5end_DNA_integrase_1874204..1874434_NEGATIVE 268 100 65 46 3 NC_002967:TDE2435|5end_hypothetical_protein_2466462..2466692_NEGATIVE 267 97 72 57 28 NC_002967:TDE1914|5end_Holliday_junction_DNA_helicase_RuvB_1931920..1932150_NEGATIVE 262 107 71 174 139 NC_002967:TDE1463|5end_hypothetical_protein_1513072..1513302_NEGATIVE 259 98 51 122 75 NC_002967:TDE1681|5end_V-type_ATP_synthase_subunit_D_1733537..1733767_NEGATIVE 259 110 62 207 158 NC_002967:TDE1527|5end_hypothetical_protein_1570804..1571034_POSITIVE 259 68 22 144 96 NC_002967:TDE1014|5end_hypothetical_protein_1045544..1045774_NEGATIVE 258 110 63 85 48 NC_002967:TDE2209|5end_CarB_family_protein_2247589..2247819_POSITIVE 256 99 52 136 84 NC_002967:TDE0182|5end_ABC_transporter,_ATP-binding_protein_216783..217013_NEGATIVE 255 96 60 70 36 NC_002967:TDE1877|5end_conserved_hypothetical_protein_TIGR00046_1898433..1898663_NEGATIVE 255 95 52 166 112 NC_002967:TDE0787|5end_preprotein_translocase_SecY_815068..815298_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 315 111 74 150 111 NC_002967:TDE2593|3end_sigma-54-binding_protein_2628963..2629113_POSITIVE 303 78 47 151 120 NC_002967:TDE2180|3end_tRNA_modification_GTPase_2210590..2210740_NEGATIVE 303 108 62 136 77 NC_002967:TDE1450|3end_MutS2_family_protein_1497856..1498006_POSITIVE 275 77 43 123 81 NC_002967:TDE0735|3end_hypothetical_protein_774746..774896_NEGATIVE 273 110 67 75 30 NC_002967:TDE2551|3end_hypothetical_protein_2576212..2576362_NEGATIVE 272 108 66 135 92 NC_002967:TDE2187|3end_ParB-like_nuclease_domain_protein_2221147..2221297_NEGATIVE 267 97 72 49 20 NC_002967:TDE1915|3end_alcohol_dehydrogenase,_iron-containing_1931928..1932078_NEGATIVE 262 106 61 47 9 NC_002967:TDE0919|3end_hypothetical_protein_939125..939275_POSITIVE 261 100 54 129 77 NC_002967:TDE2716|3end_HAD-superfamily_hydrolase,_subfamily_IA_2773931..2774081_POSITIVE 259 98 51 111 64 NC_002967:TDE1682|3end_V-type_ATP_synthase_subunit_B_1733548..1733698_NEGATIVE 257 110 63 105 64 NC_002967:TDE0475|3end_ABC_transporter,_ATP-binding_protein_531153..531303_NEGATIVE 256 99 52 136 84 NC_002967:TDE0183|3end_ABC_transporter,_permease_protein_216783..216933_NEGATIVE 254 96 52 150 98 NC_002967:TDE0786|3end_ribosomal_protein_L15_815134..815284_POSITIVE 251 118 74 125 88 NC_002967:TDE1206|3end_TPR_domain_protein_1239312..1239462_POSITIVE 249 99 51 113 70 NC_002967:TDE1078|3end_metallo-beta-lactamase_family_protein_1111045..1111195_POSITIVE 249 99 53 119 69 NC_002967:TDE0317|3end_hypothetical_protein_351116..351266_POSITIVE 247 129 88 116 53 NC_002967:TDE2124|3end_ATP-dependent_Clp_protease,_ATP-binding_subunit_ClpA_2158763..2158913_POSITIVE 246 127 81 119 68 NC_002967:TDE1142|3end_phage_minor_structural_protein,_putative_1171468..1171618_NEGATIVE 243 99 54 150 107 NC_002967:TDE2605|3end_phosphoglycerate_mutase_family_protein_2646440..2646590_POSITIVE 241 100 56 114 74 NC_002967:TDE0770|3end_50S_ribosomal_protein_L2_808862..809012_POSITIVE