Origin IGS: aaaattaacctgttattttatacataaataactggtattatatacagaaaccaatagggtgcaacttttcttttgttaaaatataacacgaactttcctttctctcagaattgtgcggcttatcactaattgggctggatttttatgctaaaatagcgcaaaatttacccgtagtcagcgaaataacgatataaaaggaaatttatt .........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 aataaatttccttttatatcgttatttcgctgactacgggtaaattttgcgctattttagcataaaaatccagcccaattagtgataagccgcacaattctgagagaaaggaaagttcgtgttatattttaacaaaagaaaagttgcaccctattggtttctgtatataataccagttatttatgtataaaataacaggttaatttt Mask Tandem Repeat Region ================================================ aaaattaacctgttattttatacataaataactggtattatatacagaaaccaatagggtgcaacttttcttttgttaaaatataacacgaactttcctttctctcagaattgtgcggcttatcactaattgggctggatttttatgctaaaatagcgcaaaatttacccgtagtcagcgaaataacgatataaaaggaaatttatt Find is-nt database================================================ Query_seq: AA01390:AA01391|AA01390:AA01391:LexA repressor:glycerol-3-phosphate acyltransferase:->->:937820..938026 207 aaaattaacctgttattttatacataaataactggtattatatacagaaaccaatagggtgcaacttttcttttgttaaaatataacacgaactttcctttctctcagaattgtgcggcttatcactaattgggctggatttttatgctaaaatagcgcaaaatttacccgtagtcagcgaaataacgatataaaaggaaatttatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA01390:AA01391|AA01390:AA01391:LexA repressor:glycerol-3-phosphate acyltransferase:->->:937820..938026 207 aaaattaacctgttattttatacataaataactggtattatatacagaaaccaatagggtgcaacttttcttttgttaaaatataacacgaactttcctttctctcagaattgtgcggcttatcactaattgggctggatttttatgctaaaatagcgcaaaatttacccgtagtcagcgaaataacgatataaaaggaaatttatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA01390:AA01391|AA01390:AA01391:LexA repressor:glycerol-3-phosphate acyltransferase:->->:937820..938026 207 aaaattaacctgttattttatacataaataactggtattatatacagaaaccaatagggtgcaacttttcttttgttaaaatataacacgaactttcctttctctcagaattgtgcggcttatcactaattgggctggatttttatgctaaaatagcgcaaaatttacccgtagtcagcgaaataacgatataaaaggaaatttatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aaaattaacctgttattttatacataaataactggtattatatacagaaaccaatagggtgcaacttttcttttgttaaaatataacacgaactttcctttctctcagaattgtgcggcttatcactaattgggctggatttttatgctaaaatagcgcaaaatttacccgtagtcagcgaaataacgatataaaaggaaatttatt Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: - Start: 41 End: 130 ........................................ I C F G I P H L K E K T L I Y C S S E K R E S N H P K D S M ............................................................................. aaaattaacctgttattttatacataaataactggtattatatacagaaaccaatagggtgcaacttttcttttgttaaaatataacacgaactttcctttctctcagaattgtgcggcttatcactaattgggctggatttttatgctaaaatagcgcaaaatttacccgtagtcagcgaaataacgatataaaaggaaatttatt 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: 80 End: 109 ...............................................................................TCTGAGAGAAAGGAAAGTTCGTGTTATATT.................................................................................................. Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ aaaattaacctgttattttatacataaataactggtattatatacagaaaccaatagggtgcaacttttcttttgttaaaatataacacgaactttcctttctctcagaattgtgcggcttatcactaattgggctggatttttatgctaaaatagcgcaaaatttacccgtagtcagcgaaataacgatataaaaggaaatttatt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA01390:AA01391|AA01390:AA01391:LexA repressor:glycerol-3-phosphate acyltransferase:->->:937820..938026 207 aaaattaacctgttattttatacataaataactggtattatatacagaaaccaatagggtgcaacttttcttttgttaaaatataacacgaactttcctttctctcagaattgtgcggcttatcactaattgggctggatttttatgctaaaatagcgcaaaatttacccgtagtcagcgaaataacgatataaaaggaaatttatt Intra-Species Hit: Count: 1 Min: 1 Max: 207 Len: 207 Subject: aact_AA01390_AA01391|LexA repressor:glycerol-3-phosphate acyltransferase|POSITIVE:POSITIVE|[937820,938026]|207 HSP 1 e-value: 1.0E-114 bit: 410.0 Len: 207 Query Start:1 Query End:207 Subject Strand: POSITIVE Subject Start: 1 Subject End: 207 aaaattaacctgttattttatacataaataactggtattatatacagaaaccaatagggtgcaacttttcttttgttaaaatataacacgaactttcctttctctcagaattgtgcggcttatcactaattgggctggatttttatgctaaaatagcgcaaaatttacccgtagtcagcgaaataacgatataaaaggaaatttatt aaaattaacctgttattttatacataaataactggtattatatacagaaaccaatagggtgcaacttttcttttgttaaaatataacacgaactttcctttctctcagaattgtgcggcttatcactaattgggctggatttttatgctaaaatagcgcaaaatttacccgtagtcagcgaaataacgatataaaaggaaatttatt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAAUUAACCUGUUAUUUUAUACAUAAAUAACUGGUAUUAUAUACAGAAACCAAUAGGGUGCAACUUUUCUUUUGUUAAAAUAUAACACGAACUUUCCUUUCUCUCAGAAUUGUGCGGCUUAUCACUAAUUGGGCUGGAUUUUUAUGCUAAAAUAGCGCAAAAUUUACCCGUAGUCAGCGAAAUAACGAUAUAAAAGGAAAUUUAUU .......(((.(((((((.......))))))).))).((((((.(........(((((.((((.(..((((..(((((.....))))).(((.......)))....))))..))))).))))).((((...(((.((((((((..(((((...))))).))))))))))).))))............)))))))............. (-34.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUAAAUUUCCUUUUAUAUCGUUAUUUCGCUGACUACGGGUAAAUUUUGCGCUAUUUUAGCAUAAAAAUCCAGCCCAAUUAGUGAUAAGCCGCACAAUUCUGAGAGAAAGGAAAGUUCGUGUUAUAUUUUAACAAAAGAAAAGUUGCACCCUAUUGGUUUCUGUAUAUAAUACCAGUUAUUUAUGUAUAAAAUAACAGGUUAAUUUU ......(((((((((...(((..((((((((((....((((..(((((..((((...))))...)))))...))))..)))))))..........)))..)))..)))))))))..((.(((((.....)))))...)).((((((.(((......((((.(((((((((..........)))))))))))))....))))))))). (-36.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 304 180 131 78 26 aact:AA00574|5end_regulatory_protein_392113..392343_POSITIVE 297 180 131 227 164 aact:AA01088|5end_rare_lipoprotein_B_precursor_752903..753133_POSITIVE 289 180 138 83 37 aact:AA02811|5end_hypothetical_protein_1979582..1979812_POSITIVE 287 190 143 72 16 aact:AA00970|5end_uroporphyrinogen_decarboxylase_(uroporphyrinogen_III_decarboxylase)_676126..676356_POSITIVE 283 158 111 71 23 aact:AA00908|5end_probable_sigma-E_factor_regulatory_protein_626076..626306_POSITIVE 281 180 132 62 6 aact:AA02226|5end_ABC_transporter_ATP-binding_protein_1514502..1514732_POSITIVE 277 148 105 170 126 aact:AA00303|5end_thymidylate_kinase_(DTMP)_206107..206337_POSITIVE 276 179 131 73 26 aact:AA01816|5end_hypothetical_protein_1223956..1224186_POSITIVE 276 180 132 72 15 aact:AA01629|5end_phosphatidylglycerophosphatase_A_1101881..1102111_POSITIVE 276 149 104 172 119 aact:AA01428|5end_acetolactate_synthase_958688..958918_POSITIVE 275 198 155 128 82 aact:AA02727|5end_hypothetical_protein_1909735..1909965_POSITIVE 273 119 88 75 36 aact:AA01634|5end_hypothetical_protein_1104324..1104554_POSITIVE 270 150 109 90 53 aact:AA00347|5end_50S_ribosomal_protein_L11_232137..232367_POSITIVE 270 143 105 58 18 aact:AA00012|5end_conserved_hypothetical_protein_6433..6663_POSITIVE 268 134 96 231 184 aact:AA00208|5end_D-ribose_ABC_transporter,_permease_protein_/_Galactoside_transport_system_permease_protein_144097..144327_POSITIVE 267 192 155 201 156 aact:AA00135|5end_S-adenosylmethionine:_2-demethylmenaquinone_methyltransferase_(menaquinone_biosynthesis_protein)_96303..96533_POSITIVE 265 178 135 156 122 aact:AA02202|5end_transferrin-binding_protein_1_precursor_1499453..1499683_POSITIVE 261 160 111 132 82 aact:AA00761|5end_conserved_hypothetical_protein_(possible_peptidase)_523554..523784_POSITIVE 257 190 145 149 98 aact:AA01265|5end_hypothetical_protein_861979..862209_POSITIVE 256 158 120 40 1 aact:AA02545|5end_conserved_hypothetical_protein_1773965..1774195_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 287 190 143 72 16 aact:AA00969|3end_conserved_hypothetical_protein_(possible_NADH_pyrophosphatase)_676206..676356_POSITIVE 283 158 111 58 10 aact:AA00906|3end_sigma-E_factor_regulatory_protein_626143..626293_POSITIVE 281 180 132 72 16 aact:AA02225|3end_ABC_transporter_ATP-binding_protein_1514592..1514742_POSITIVE 276 180 132 59 2 aact:AA01628|3end_thiamin-monophosphate_kinase_1101948..1102098_POSITIVE 276 149 104 59 6 aact:AA01426|3end_threonine_deaminase_(dehydratase)_958655..958805_POSITIVE 270 158 112 135 76 aact:AA02002|3end_hypothetical_protein_1360407..1360557_POSITIVE 267 192 155 147 102 aact:AA00134|3end_1,4-dihydroxy-2-naphthoate_octaprenyltransferase_(menaquinone_biosynthetic_protein)_96329..96479_POSITIVE 263 138 96 148 110 aact:AA02982|3end_pyruvate_formate-lyase_activating_enzyme_2085127..2085277_POSITIVE 257 190 145 146 95 aact:AA01264|3end_conserved_hypothetical_protein_862056..862206_POSITIVE 253 159 114 138 89 aact:AA00480|3end_mannose-specific_phosphotransferase_system_IID_335199..335349_POSITIVE 251 148 102 73 26 aact:AA01297|3end_competence_protein_E_precursor_880611..880761_POSITIVE 251 160 111 72 26 aact:AA00839|3end_UDP-MurNAc-pentapeptide_phosphotransferase_579784..579934_POSITIVE 251 160 111 102 60 aact:AA00030|3end_hypothetical_protein_25168..25318_POSITIVE 250 123 90 139 107 aact:AA02415|3end_hypothetical_protein_1658726..1658876_POSITIVE 249 159 112 82 34 aact:AA02254|3end_2-oxoglutarate/malate_translocator_1536380..1536530_POSITIVE 248 149 106 142 93 aact:AA02145|3end_iron(III)_ABC_transporter,_ATP-binding_protein_1469176..1469326_POSITIVE 248 158 111 82 39 aact:AA01543|3end_hypothetical_protein_1034350..1034500_POSITIVE 247 180 134 113 54 aact:AA02697|3end_hydrogenase_3_maturation_protease_1880408..1880558_POSITIVE 243 149 111 124 89 aact:AA02614|3end_conserved_hypothetical_protein_1823032..1823182_POSITIVE 243 159 113 139 94 aact:AA00863|3end_conserved_hypothetical_protein_598678..598828_POSITIVE