Origin IGS: ctttataatgttttcccgccattcggcaacatctttggggttcatcttttacctcctcttatcgaaaactttttagcgaggtgatattttatcacataagacgaaaaaataaaagtaggaggaggctaaattgccggccttaaaagctc .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 gagcttttaaggccggcaatttagcctcctcctacttttattttttcgtcttatgtgataaaatatcacctcgctaaaaagttttcgataagaggaggtaaaagatgaaccccaaagatgttgccgaatggcgggaaaacattataaag Mask Tandem Repeat Region ================================================ ctttataatgttttcccgccattcggcaacatctttggggttcatcttttacctcctcttatcgaaaactttttagcgaggtgatattttatcacataagacgaaaaaataaaagtaggaggaggctaaattgccggccttaaaagctc Find is-nt database================================================ Query_seq: TDE0193:TDE0194|TDE0193:TDE0194:hypothetical protein:hypothetical protein:<-<-:230680..230828 149 ctttataatgttttcccgccattcggcaacatctttggggttcatcttttacctcctcttatcgaaaactttttagcgaggtgatattttatcacataagacgaaaaaataaaagtaggaggaggctaaattgccggccttaaaagctc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE0193:TDE0194|TDE0193:TDE0194:hypothetical protein:hypothetical protein:<-<-:230680..230828 149 ctttataatgttttcccgccattcggcaacatctttggggttcatcttttacctcctcttatcgaaaactttttagcgaggtgatattttatcacataagacgaaaaaataaaagtaggaggaggctaaattgccggccttaaaagctc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE0193:TDE0194|TDE0193:TDE0194:hypothetical protein:hypothetical protein:<-<-:230680..230828 149 ctttataatgttttcccgccattcggcaacatctttggggttcatcttttacctcctcttatcgaaaactttttagcgaggtgatattttatcacataagacgaaaaaataaaagtaggaggaggctaaattgccggccttaaaagctc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ctttataatgttttcccgccattcggcaacatctttggggttcatcttttacctcctcttatcgaaaactttttagcgaggtgatattttatcacataagacgaaaaaataaaagtaggaggaggctaaattgccggccttaaaagctc Predict ORF larger than 30AA ================================================ Protein_Len: 40 Strand: + Start: 21 End: 140 .................... M R Q H L W G S S F T S S Y R K L F S E V I F Y H I R R K N K S R R R L N C R P ......... ctttataatgttttcccgccattcggcaacatctttggggttcatcttttacctcctcttatcgaaaactttttagcgaggtgatattttatcacataagacgaaaaaataaaagtaggaggaggctaaattgccggccttaaaagctc 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================================================ ctttataatgttttcccgccattcggcaacatctttggggttcatcttttacctcctcttatcgaaaactttttagcgaggtgatattttatcacataagacgaaaaaataaaagtaggaggaggctaaattgccggccttaaaagctc Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TDE0193:TDE0194|TDE0193:TDE0194:hypothetical protein:hypothetical protein:<-<-:230680..230828 149 ctttataatgttttcccgccattcggcaacatctttggggttcatcttttacctcctcttatcgaaaactttttagcgaggtgatattttatcacataagacgaaaaaataaaagtaggaggaggctaaattgccggccttaaaagctc Intra-Species Hit: Count: 1 Min: 1 Max: 149 Len: 149 Subject: NC_002967_TDE0193_TDE0194|hypothetical protein:hypothetical protein|NEGATIVE:NEGATIVE|[230680,230828]|149 HSP 1 e-value: 2.0E-79 bit: 295.0 Len: 149 Query Start:1 Query End:149 Subject Strand: POSITIVE Subject Start: 1 Subject End: 149 ctttataatgttttcccgccattcggcaacatctttggggttcatcttttacctcctcttatcgaaaactttttagcgaggtgatattttatcacataagacgaaaaaataaaagtaggaggaggctaaattgccggccttaaaagctc ctttataatgttttcccgccattcggcaacatctttggggttcatcttttacctcctcttatcgaaaactttttagcgaggtgatattttatcacataagacgaaaaaataaaagtaggaggaggctaaattgccggccttaaaagctc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUUUAUAAUGUUUUCCCGCCAUUCGGCAACAUCUUUGGGGUUCAUCUUUUACCUCCUCUUAUCGAAAACUUUUUAGCGAGGUGAUAUUUUAUCACAUAAGACGAAAAAAUAAAAGUAGGAGGAGGCUAAAUUGCCGGCCUUAAAAGCUC .................(((....)))......(((((((((.....(((((((((((((((.......(((((..(...((((((...))))))....)..))))).......))))))))))).)))).....)))))))))..... (-37.44) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAGCUUUUAAGGCCGGCAAUUUAGCCUCCUCCUACUUUUAUUUUUUCGUCUUAUGUGAUAAAAUAUCACCUCGCUAAAAAGUUUUCGAUAAGAGGAGGUAAAAGAUGAACCCCAAAGAUGUUGCCGAAUGGCGGGAAAACAUUAUAAAG ..........((....((.(((.((((((((........(((((((.((.....((((((...))))))...)).))))))).........)))))))).)))..))....))...((((((.(((.....)))...))))))...... (-31.33) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 939 60 11 151 102 NC_002967:TDE0193|5end_hypothetical_protein_230589..230819_NEGATIVE 371 57 13 103 56 NC_002967:TDE1261|5end_choline/carnitine/betaine_transporter_family_protein_1295593..1295823_POSITIVE 346 54 13 197 155 NC_002967:TDE1978|5end_hypothetical_protein_1991758..1991988_NEGATIVE 325 50 8 96 53 NC_002967:TDE1267|5end_phosphoribosylamine--glycine_ligase_1302940..1303170_NEGATIVE 320 58 12 110 44 NC_002967:TDE1647|5end_DNA-binding_protein_1696502..1696732_NEGATIVE 317 138 91 169 125 NC_002967:TDE0438|5end_queuine_tRNA-ribosyltransferase_494811..495041_NEGATIVE 313 54 13 197 155 NC_002967:TDE0735|5end_hypothetical_protein_775003..775233_NEGATIVE 296 42 13 29 1 NC_002967:TDE2510|5end_ABC_transporter,_ATP-binding/permease_protein_2534182..2534412_POSITIVE 290 60 16 105 46 NC_002967:TDE0571|5end_hypothetical_protein_601135..601365_POSITIVE 288 138 92 48 1 NC_002967:TDE2782|5end_ABC_transporter,_ATP-binding/permease_protein_2834276..2834506_NEGATIVE 288 49 2 135 87 NC_002967:TDE1661|5end_hypothetical_protein_1715402..1715632_POSITIVE 287 70 23 109 51 NC_002967:TDE2405|5end_hypothetical_protein_2432050..2432280_NEGATIVE 287 60 11 119 54 NC_002967:TDE1157|5end_phage_terminase,_large_subunit,_putative_1193293..1193523_NEGATIVE 286 60 11 162 96 NC_002967:TDE0475|5end_ABC_transporter,_ATP-binding_protein_532208..532438_NEGATIVE 283 53 16 55 17 NC_002967:TDE2298|5end_galactokinase,_putative_2338267..2338497_NEGATIVE 275 46 2 135 87 NC_002967:TDE0143|5end_thiamine_ABC_transporter,_thiamine-binding_protein_164013..164243_POSITIVE 273 57 16 102 48 NC_002967:TDE1627|5end_glycine_cleavage_system_T_protein_1676411..1676641_NEGATIVE 269 50 1 113 70 NC_002967:TDE1885|5end_hypothetical_protein_1906857..1907087_POSITIVE 268 138 109 41 7 NC_002967:TDE0121|5end_hypothetical_protein_138870..139100_POSITIVE 267 65 21 230 189 NC_002967:TDE1068|5end_oligopeptide/dipeptide_ABC_transporter,_ATP-binding_protein_1096686..1096916_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 371 57 13 106 59 NC_002967:TDE1260|3end_cholinephosphate_cytidylyltransferase/choline_kinase_1295676..1295826_POSITIVE 320 58 12 126 60 NC_002967:TDE1648|3end_hypothetical_protein_1696486..1696636_NEGATIVE 287 70 23 112 54 NC_002967:TDE2406|3end_TldD/PmbA_family_protein_2432047..2432197_NEGATIVE 284 140 114 84 50 NC_002967:TDE2293|3end_hypothetical_protein_2329325..2329475_NEGATIVE 277 66 21 130 68 NC_002967:TDE2403|3end_metallo-beta-lactamase_family_protein_2428641..2428791_NEGATIVE 275 46 2 107 59 NC_002967:TDE0141|3end_hypothetical_protein_164065..164215_POSITIVE 274 139 114 77 54 NC_002967:TDE0481|3end_hypothetical_protein_538197..538347_NEGATIVE 272 60 15 96 47 NC_002967:TDE2061|3end_hypothetical_protein_2086779..2086929_NEGATIVE 257 54 12 140 102 NC_002967:TDE2103|3end_glycosyl_transferase,_group_2_family_protein_2127527..2127677_NEGATIVE 253 104 61 56 12 NC_002967:TDE1485|3end_hypothetical_protein_1530382..1530532_POSITIVE 252 29 8 42 18 NC_002967:TDE2120|3end_glycine_reductase_complex_proprotein_GrdE2_2152705..2152855_NEGATIVE 252 60 15 106 61 NC_002967:TDE0157|3end_KHG/KDPG_family_aldolase/carbohydrate_kinase,_PfkB_family_185711..185861_POSITIVE 251 56 11 112 55 NC_002967:TDE2626|3end_ABC_transporter,_ATP-binding/permease_protein_2666657..2666807_NEGATIVE 247 56 19 133 97 NC_002967:TDE1636|3end_surface_antigen,_putative_1683517..1683667_NEGATIVE 244 57 13 112 50 NC_002967:TDE0611|3end_hypothetical_protein_647279..647429_NEGATIVE 244 140 120 86 66 NC_002967:TDE0361|3end_transporter,_putative_407442..407592_POSITIVE 243 59 17 71 38 NC_002967:TDE2737|3end_hypothetical_protein_2792690..2792840_POSITIVE 243 55 14 68 28 NC_002967:TDE1915|3end_alcohol_dehydrogenase,_iron-containing_1931928..1932078_NEGATIVE 243 43 9 137 92 NC_002967:TDE1850|3end_ABC_transporter,_permease_protein,_putative_1878227..1878377_NEGATIVE 243 55 11 87 47 NC_002967:TDE1059|3end_hypothetical_protein_1086498..1086648_NEGATIVE