Origin IGS: atttttccctttctaagatatatgatttctataacacacgactccgtaacaagatttaagaaaaacttctcgattccaataataaataaaacgtagaaaaccattaaatgcatgcttttattttacttgatgtcattttggattaacaatagcttaataaacaaataaaacttcaatctcgatgccaaaaaagtctttgaaattgaaaataactatattcgatgcataactccaattgaaaaagaagttatcgtaattttctatgtaccttgccgttaatcgataaaagatgtatactctaattgtaaattaaacataactttaatacaatttcggaggaact .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 agttcctccgaaattgtattaaagttatgtttaatttacaattagagtatacatcttttatcgattaacggcaaggtacatagaaaattacgataacttctttttcaattggagttatgcatcgaatatagttattttcaatttcaaagacttttttggcatcgagattgaagttttatttgtttattaagctattgttaatccaaaatgacatcaagtaaaataaaagcatgcatttaatggttttctacgttttatttattattggaatcgagaagtttttcttaaatcttgttacggagtcgtgtgttatagaaatcatatatcttagaaagggaaaaat Mask Tandem Repeat Region ================================================ atttttccctttctaagatatatgatttctataacacacgactccgtaacaagatttaagaaaaacttctcgattccaataataaataaaacgtagaaaaccattaaatgcatgcttttattttacttgatgtcattttggattaacaatagcttaataaacaaataaaacttcaatctcgatgccaaaaaagtctttgaaattgaaaataactatattcgatgcataactccaattgaaaaagaagttatcgtaattttctatgtaccttgccgttaatcgataaaagatgtatactctaattgtaaattaaacataactttaatacaatttcggaggaact Find is-nt database================================================ Query_seq: TDE0299:TDE0300|TDE0299:TDE0300:mutator mutT protein:leucyl aminopeptidase:->->:330640..330982 343 atttttccctttctaagatatatgatttctataacacacgactccgtaacaagatttaagaaaaacttctcgattccaataataaataaaacgtagaaaaccattaaatgcatgcttttattttacttgatgtcattttggattaacaatagcttaataaacaaataaaacttcaatctcgatgccaaaaaagtctttgaaattgaaaataactatattcgatgcataactccaattgaaaaagaagttatcgtaattttctatgtaccttgccgttaatcgataaaagatgtatactctaattgtaaattaaacataactttaatacaatttcggaggaact Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE0299:TDE0300|TDE0299:TDE0300:mutator mutT protein:leucyl aminopeptidase:->->:330640..330982 343 atttttccctttctaagatatatgatttctataacacacgactccgtaacaagatttaagaaaaacttctcgattccaataataaataaaacgtagaaaaccattaaatgcatgcttttattttacttgatgtcattttggattaacaatagcttaataaacaaataaaacttcaatctcgatgccaaaaaagtctttgaaattgaaaataactatattcgatgcataactccaattgaaaaagaagttatcgtaattttctatgtaccttgccgttaatcgataaaagatgtatactctaattgtaaattaaacataactttaatacaatttcggaggaact Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE0299:TDE0300|TDE0299:TDE0300:mutator mutT protein:leucyl aminopeptidase:->->:330640..330982 343 atttttccctttctaagatatatgatttctataacacacgactccgtaacaagatttaagaaaaacttctcgattccaataataaataaaacgtagaaaaccattaaatgcatgcttttattttacttgatgtcattttggattaacaatagcttaataaacaaataaaacttcaatctcgatgccaaaaaagtctttgaaattgaaaataactatattcgatgcataactccaattgaaaaagaagttatcgtaattttctatgtaccttgccgttaatcgataaaagatgtatactctaattgtaaattaaacataactttaatacaatttcggaggaact Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 atttttccctttctaagatatatgatttctataacacacgactccgtaacaagatttaagaaaaacttctcgattccaataataaataaaacgtagaaaaccattaaatgcatgcttttattttacttgatgtcattttggattaacaatagcttaataaacaaataaaacttcaatctcgatgccaaaaaagtctttgaaattgaaaataactatattcgatgcataactccaattgaaaaagaagttatcgtaattttctatgtaccttgccgttaatcgataaaagatgtatactctaattgtaaattaaacataactttaatacaatttcggaggaact Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: + Start: 1 End: 93 M F P F L R Y M I S I T H D S V T R F K K N F S I P I I N K T .......................................................................................................................................................................................................................................................... Protein_Len: 49 Strand: - Start: 157 End: 303 ............................................................................................................................................................ Y V F L V E I E I G F F D K F N F I V I N S A Y S W N F F F N D Y N E I Y R A T L R Y F I Y V R M ........................................ Protein_Len: 37 Strand: - Start: 3 End: 113 .. K G K R L Y I I E I V C S E T V L N L F F K E I G I I F L V Y F V M L H M ...................................................................................................................................................................................................................................... atttttccctttctaagatatatgatttctataacacacgactccgtaacaagatttaagaaaaacttctcgattccaataataaataaaacgtagaaaaccattaaatgcatgcttttattttacttgatgtcattttggattaacaatagcttaataaacaaataaaacttcaatctcgatgccaaaaaagtctttgaaattgaaaataactatattcgatgcataactccaattgaaaaagaagttatcgtaattttctatgtaccttgccgttaatcgataaaagatgtatactctaattgtaaattaaacataactttaatacaatttcggaggaact Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ PromScan Matrix: RpoD-17 Strand: + Score: 82 Start: 269 End: 298 ............................................................................................................................................................................................................................................................................CTTGCCGTTAATCGATAAAAGATGTATACT............................................. PromScan Matrix: RpoD-17 Strand: + Score: 82 Start: 302 End: 331 .............................................................................................................................................................................................................................................................................................................ATTGTAAATTAAACATAACTTTAATACAAT............ PromScan Matrix: RpoD-17 Strand: - Score: 82 Start: 302 End: 331 .............................................................................................................................................................................................................................................................................................................ATTGTATTAAAGTTATGTTTAATTTACAAT............ Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ atttttccctttctaagatatatgatttctataacacacgactccgtaacaagatttaagaaaaacttctcgattccaataataaataaaacgtagaaaaccattaaatgcatgcttttattttacttgatgtcattttggattaacaatagcttaataaacaaataaaacttcaatctcgatgccaaaaaagtctttgaaattgaaaataactatattcgatgcataactccaattgaaaaagaagttatcgtaattttctatgtaccttgccgttaatcgataaaagatgtatactctaattgtaaattaaacataactttaatacaatttcggaggaact Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TDE0299:TDE0300|TDE0299:TDE0300:mutator mutT protein:leucyl aminopeptidase:->->:330640..330982 343 atttttccctttctaagatatatgatttctataacacacgactccgtaacaagatttaagaaaaacttctcgattccaataataaataaaacgtagaaaaccattaaatgcatgcttttattttacttgatgtcattttggattaacaatagcttaataaacaaataaaacttcaatctcgatgccaaaaaagtctttgaaattgaaaataactatattcgatgcataactccaattgaaaaagaagttatcgtaattttctatgtaccttgccgttaatcgataaaagatgtatactctaattgtaaattaaacataactttaatacaatttcggaggaact Intra-Species Hit: Count: 1 Min: 1 Max: 343 Len: 343 Subject: NC_002967_TDE0299_TDE0300|mutator mutT protein:leucyl aminopeptidase|POSITIVE:POSITIVE|[330640,330982]|343 HSP 1 e-value: 0.0 bit: 680.0 Len: 343 Query Start:1 Query End:343 Subject Strand: POSITIVE Subject Start: 1 Subject End: 343 atttttccctttctaagatatatgatttctataacacacgactccgtaacaagatttaagaaaaacttctcgattccaataataaataaaacgtagaaaaccattaaatgcatgcttttattttacttgatgtcattttggattaacaatagcttaataaacaaataaaacttcaatctcgatgccaaaaaagtctttgaaattgaaaataactatattcgatgcataactccaattgaaaaagaagttatcgtaattttctatgtaccttgccgttaatcgataaaagatgtatactctaattgtaaattaaacataactttaatacaatttcggaggaact atttttccctttctaagatatatgatttctataacacacgactccgtaacaagatttaagaaaaacttctcgattccaataataaataaaacgtagaaaaccattaaatgcatgcttttattttacttgatgtcattttggattaacaatagcttaataaacaaataaaacttcaatctcgatgccaaaaaagtctttgaaattgaaaataactatattcgatgcataactccaattgaaaaagaagttatcgtaattttctatgtaccttgccgttaatcgataaaagatgtatactctaattgtaaattaaacataactttaatacaatttcggaggaact Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUUUUCCCUUUCUAAGAUAUAUGAUUUCUAUAACACACGACUCCGUAACAAGAUUUAAGAAAAACUUCUCGAUUCCAAUAAUAAAUAAAACGUAGAAAACCAUUAAAUGCAUGCUUUUAUUUUACUUGAUGUCAUUUUGGAUUAACAAUAGCUUAAUAAACAAAUAAAACUUCAAUCUCGAUGCCAAAAAAGUCUUUGAAAUUGAAAAUAACUAUAUUCGAUGCAUAACUCCAAUUGAAAAAGAAGUUAUCGUAAUUUUCUAUGUACCUUGCCGUUAAUCGAUAAAAGAUGUAUACUCUAAUUGUAAAUUAAACAUAACUUUAAUACAAUUUCGGAGGAACU .(((((((.......(((.......(((((((.....(((....))).....((.(..((((....))))..).))................)))))))........((((((.((((((((....((((((.((....((...........................((((((....(((((..((((......))))..)))))...........((((((...........))))))...))))))..((((......))))..)).)).))))))..))))))))))))))..)))(((((((..(((((......))))))))))))..))))))).. (-48.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGUUCCUCCGAAAUUGUAUUAAAGUUAUGUUUAAUUUACAAUUAGAGUAUACAUCUUUUAUCGAUUAACGGCAAGGUACAUAGAAAAUUACGAUAACUUCUUUUUCAAUUGGAGUUAUGCAUCGAAUAUAGUUAUUUUCAAUUUCAAAGACUUUUUUGGCAUCGAGAUUGAAGUUUUAUUUGUUUAUUAAGCUAUUGUUAAUCCAAAAUGACAUCAAGUAAAAUAAAAGCAUGCAUUUAAUGGUUUUCUACGUUUUAUUUAUUAUUGGAAUCGAGAAGUUUUUCUUAAAUCUUGUUACGGAGUCGUGUGUUAUAGAAAUCAUAUAUCUUAGAAAGGGAAAAAU .....(((((.(((((....((((.((((((((((.....)))))).))))...))))...)))))...((((((((....((((((........((((((((((((((..(((((((((..((((((.......((((((((((.....(......).....))))))))))...))))))((((((..(((..(((((........)))))...)))..)))))).))))).....((((........))))..))))...)))))))..)))))))))))))...)))))))).)))))..(((((..........))))).((((.....))))..... (-54.90) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 262 300 252 48 4 NC_002967:TDE0856|5end_L-fuculose_phosphate_aldolase,_putative_877111..877341_POSITIVE 253 275 237 181 137 NC_002967:TDE2655|5end_hypothetical_protein_2693070..2693300_NEGATIVE 251 280 233 173 125 NC_002967:TDE1021|5end_lipoprotein,_putative_1053564..1053794_NEGATIVE 249 276 236 107 64 NC_002967:TDE1314|5end_penicillin-binding_protein_1351174..1351404_POSITIVE 240 277 231 208 153 NC_002967:TDE1222|5end_iron-dependent_transcriptional_regulator_1256709..1256939_NEGATIVE 232 194 171 43 13 NC_002967:TDE2739|5end_hypothetical_protein_2794673..2794903_POSITIVE 230 303 263 219 173 NC_002967:TDE2631|5end_peptide_ABC_transporter,_permease_protein,_putative_2671829..2672059_POSITIVE 228 285 241 195 138 NC_002967:TDE1734|5end_exodeoxyribonuclease_III_1788613..1788843_POSITIVE 220 82 42 148 102 NC_002967:TDE2181|5end_PAP2_family_protein_2213035..2213265_NEGATIVE 220 279 250 78 53 NC_002967:TDE2037|5end_ATP:guanido_phosphotransferase_domain_protein_2067720..2067950_NEGATIVE 217 300 268 174 144 NC_002967:TDE1413|5end_cytidylyltransferase/phosphoenolpyruvate_phosphomutase,_putative_1455510..1455740_POSITIVE 217 338 291 119 68 NC_002967:TDE0465|5end_PIN_domain_protein_518645..518875_NEGATIVE 213 299 265 151 109 NC_002967:TDE1566|5end_hypothetical_protein_1617822..1618052_POSITIVE 212 142 112 139 113 NC_002967:TDE0923|5end_ABC_transporter,_ATP-binding/permease_protein_945731..945961_NEGATIVE 209 306 265 178 131 NC_002967:TDE1857|5end_hypothetical_protein_1884450..1884680_NEGATIVE 209 298 252 135 89 NC_002967:TDE0725|5end_exopolysaccharide_biosynthesis_protein_763465..763695_POSITIVE 207 285 244 215 165 NC_002967:TDE2640|5end_hypothetical_protein_2680034..2680264_POSITIVE 207 298 251 125 78 NC_002967:TDE0512|5end_hypothetical_protein_561442..561672_NEGATIVE 205 68 23 74 32 NC_002967:TDE0930|5end_hypothetical_protein_953688..953918_NEGATIVE 202 273 231 73 14 NC_002967:TDE0701|5end_hypothetical_protein_737247..737477_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 282 75 38 80 42 NC_002967:TDE2655|3end_hypothetical_protein_2692963..2693113_NEGATIVE 256 300 257 42 1 NC_002967:TDE0855|3end_DNA-binding_response_regulator_877185..877335_POSITIVE 249 276 236 119 76 NC_002967:TDE1313|3end_signal_peptidase_I_1351266..1351416_POSITIVE 220 82 42 148 102 NC_002967:TDE2182|3end_hypothetical_protein_2213035..2213185_NEGATIVE 220 279 250 94 69 NC_002967:TDE2038|3end_UVR_domain_protein_2067704..2067854_NEGATIVE 217 338 291 119 68 NC_002967:TDE0466|3end_hypothetical_protein_518645..518795_NEGATIVE 215 46 2 69 22 NC_002967:TDE1038|3end_hypothetical_protein_1065405..1065555_NEGATIVE 214 206 166 78 45 NC_002967:TDE0236|3end_PIN_domain_protein_269647..269797_POSITIVE 212 142 112 119 93 NC_002967:TDE0924|3end_ABC_transporter,_ATP-binding/permease_protein_945751..945901_NEGATIVE 211 49 5 58 5 NC_002967:TDE2365|3end_high-affinity_branched-chain_amino_acid_ABC_transporter,_permease_protein_2398930..2399080_NEGATIVE 208 339 298 128 79 NC_002967:TDE2144|3end_hypothetical_protein_2180451..2180601_NEGATIVE 207 298 251 48 1 NC_002967:TDE0513|3end_hypothetical_protein_561519..561669_NEGATIVE 202 273 231 76 17 NC_002967:TDE0702|3end_ABC_transporter,_ATP-binding_protein_737244..737394_NEGATIVE 202 268 223 106 55 NC_002967:TDE0348|3end_transcriptional_regulator,_TetR_family_391133..391283_POSITIVE 201 77 37 91 41 NC_002967:TDE2685|3end_flagellar_synthesis_regulator_FleN_2724896..2725046_NEGATIVE 200 340 296 150 107 NC_002967:TDE1563|3end_hypothetical_protein_1616513..1616663_POSITIVE 200 297 259 133 83 NC_002967:TDE0772|3end_50S_ribosomal_protein_L22_809520..809670_POSITIVE 200 275 232 78 14 NC_002967:TDE0141|3end_hypothetical_protein_164065..164215_POSITIVE 198 208 165 46 5 NC_002967:TDE1674|3end_hypothetical_protein_1728232..1728382_NEGATIVE 198 299 268 46 19 NC_002967:TDE0453|3end_hypothetical_protein_510143..510293_NEGATIVE