Origin IGS: acgaacacctatgaaagttataaatgaagttaaaaatggaaaggttaaaaaaggttaggcgctcaatatagactaataaaaacaggagtcaatagagataaatcactaattttataaaatttacgttattttttgatgaataatttttattttttagatttttattctgtttgatttatttgcttttagaataaaaaaataaattttaataaaaagcgatttaaaccagcggaaaagtccatacaataccgaataaaacgctaaaaagaaaaatttgcaatcagttcaattaaaatgagggaaatttaaactttctgtgaatttggtgtagagtatgtttaagctttaacttacttaaatcttatgcaaccgacatctcttcagcgacaaaaaaacgaggcgaaaatctgcaaaa .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9 ttttgcagattttcgcctcgtttttttgtcgctgaagagatgtcggttgcataagatttaagtaagttaaagcttaaacatactctacaccaaattcacagaaagtttaaatttccctcattttaattgaactgattgcaaatttttctttttagcgttttattcggtattgtatggacttttccgctggtttaaatcgctttttattaaaatttatttttttattctaaaagcaaataaatcaaacagaataaaaatctaaaaaataaaaattattcatcaaaaaataacgtaaattttataaaattagtgatttatctctattgactcctgtttttattagtctatattgagcgcctaaccttttttaacctttccatttttaacttcatttataactttcataggtgttcgt Mask Tandem Repeat Region ================================================ acgaacacctatgaaagttataaatgaagttaaaaatggaaaggttaaaaaaggttaggcgctcaatatagactaataaaaacaggagtcaatagagataaatcactaattttataaaatttacgttattttttgatgaataatttttattttttagatttttattctgtttgatttatttgcttttagaataaaaaaataaattttaataaaaagcgatttaaaccagcggaaaagtccatacaataccgaataaaacgctaaaaagaaaaatttgcaatcagttcaattaaaatgagggaaatttaaactttctgtgaatttggtgtagagtatgtttaagctttaacttacttaaatcttatgcaaccgacatctcttcagcgacaaaaaaacgaggcgaaaatctgcaaaa Find is-nt database================================================ Query_seq: AA00884:AA00885|AA00884:AA00885:sodium-dependent transporter:ribosomal large subunit pseudouridine synthase c:->->:616032..616446 415 acgaacacctatgaaagttataaatgaagttaaaaatggaaaggttaaaaaaggttaggcgctcaatatagactaataaaaacaggagtcaatagagataaatcactaattttataaaatttacgttattttttgatgaataatttttattttttagatttttattctgtttgatttatttgcttttagaataaaaaaataaattttaataaaaagcgatttaaaccagcggaaaagtccatacaataccgaataaaacgctaaaaagaaaaatttgcaatcagttcaattaaaatgagggaaatttaaactttctgtgaatttggtgtagagtatgtttaagctttaacttacttaaatcttatgcaaccgacatctcttcagcgacaaaaaaacgaggcgaaaatctgcaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00884:AA00885|AA00884:AA00885:sodium-dependent transporter:ribosomal large subunit pseudouridine synthase c:->->:616032..616446 415 acgaacacctatgaaagttataaatgaagttaaaaatggaaaggttaaaaaaggttaggcgctcaatatagactaataaaaacaggagtcaatagagataaatcactaattttataaaatttacgttattttttgatgaataatttttattttttagatttttattctgtttgatttatttgcttttagaataaaaaaataaattttaataaaaagcgatttaaaccagcggaaaagtccatacaataccgaataaaacgctaaaaagaaaaatttgcaatcagttcaattaaaatgagggaaatttaaactttctgtgaatttggtgtagagtatgtttaagctttaacttacttaaatcttatgcaaccgacatctcttcagcgacaaaaaaacgaggcgaaaatctgcaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00884:AA00885|AA00884:AA00885:sodium-dependent transporter:ribosomal large subunit pseudouridine synthase c:->->:616032..616446 415 acgaacacctatgaaagttataaatgaagttaaaaatggaaaggttaaaaaaggttaggcgctcaatatagactaataaaaacaggagtcaatagagataaatcactaattttataaaatttacgttattttttgatgaataatttttattttttagatttttattctgtttgatttatttgcttttagaataaaaaaataaattttaataaaaagcgatttaaaccagcggaaaagtccatacaataccgaataaaacgctaaaaagaaaaatttgcaatcagttcaattaaaatgagggaaatttaaactttctgtgaatttggtgtagagtatgtttaagctttaacttacttaaatcttatgcaaccgacatctcttcagcgacaaaaaaacgaggcgaaaatctgcaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 acgaacacctatgaaagttataaatgaagttaaaaatggaaaggttaaaaaaggttaggcgctcaatatagactaataaaaacaggagtcaatagagataaatcactaattttataaaatttacgttattttttgatgaataatttttattttttagatttttattctgtttgatttatttgcttttagaataaaaaaataaattttaataaaaagcgatttaaaccagcggaaaagtccatacaataccgaataaaacgctaaaaagaaaaatttgcaatcagttcaattaaaatgagggaaatttaaactttctgtgaatttggtgtagagtatgtttaagctttaacttacttaaatcttatgcaaccgacatctcttcagcgacaaaaaaacgaggcgaaaatctgcaaaa Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: + Start: 321 End: 413 ................................................................................................................................................................................................................................................................................................................................ M W C R V C L S F N L L K S Y A T D I S S A T K K R G E N L Q .. Protein_Len: 30 Strand: - Start: 157 End: 246 ............................................................................................................................................................ I K I R N S K N A K L I F F Y I K I F L S K F W R F L G Y M ......................................................................................................................................................................... acgaacacctatgaaagttataaatgaagttaaaaatggaaaggttaaaaaaggttaggcgctcaatatagactaataaaaacaggagtcaatagagataaatcactaattttataaaatttacgttattttttgatgaataatttttattttttagatttttattctgtttgatttatttgcttttagaataaaaaaataaattttaataaaaagcgatttaaaccagcggaaaagtccatacaataccgaataaaacgctaaaaagaaaaatttgcaatcagttcaattaaaatgagggaaatttaaactttctgtgaatttggtgtagagtatgtttaagctttaacttacttaaatcttatgcaaccgacatctcttcagcgacaaaaaaacgaggcgaaaatctgcaaaa 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: 81 Start: 252 End: 281 ...........................................................................................................................................................................................................................................................ATTGCAAATTTTTCTTTTTAGCGTTTTATT...................................................................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ acgaacacctatgaaagttataaatgaagttaaaaatggaaaggttaaaaaaggttaggcgctcaatatagactaataaaaacaggagtcaatagagataaatcactaattttataaaatttacgttattttttgatgaataatttttattttttagatttttattctgtttgatttatttgcttttagaataaaaaaataaattttaataaaaagcgatttaaaccagcggaaaagtccatacaataccgaataaaacgctaaaaagaaaaatttgcaatcagttcaattaaaatgagggaaatttaaactttctgtgaatttggtgtagagtatgtttaagctttaacttacttaaatcttatgcaaccgacatctcttcagcgacaaaaaaacgaggcgaaaatctgcaaaa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA00884:AA00885|AA00884:AA00885:sodium-dependent transporter:ribosomal large subunit pseudouridine synthase c:->->:616032..616446 415 acgaacacctatgaaagttataaatgaagttaaaaatggaaaggttaaaaaaggttaggcgctcaatatagactaataaaaacaggagtcaatagagataaatcactaattttataaaatttacgttattttttgatgaataatttttattttttagatttttattctgtttgatttatttgcttttagaataaaaaaataaattttaataaaaagcgatttaaaccagcggaaaagtccatacaataccgaataaaacgctaaaaagaaaaatttgcaatcagttcaattaaaatgagggaaatttaaactttctgtgaatttggtgtagagtatgtttaagctttaacttacttaaatcttatgcaaccgacatctcttcagcgacaaaaaaacgaggcgaaaatctgcaaaa Intra-Species Hit: Count: 1 Min: 1 Max: 415 Len: 415 Subject: aact_AA00884_AA00885|sodium-dependent transporter:ribosomal large subunit pseudouridine synthase c|POSITIVE:POSITIVE|[616032,616446]|415 HSP 1 e-value: 1.0E-101 bit: 369.0 Len: 207 Query Start:209 Query End:415 Subject Strand: POSITIVE Subject Start: 209 Subject End: 415 ................................................................................................................................................................................................................ataaaaagcgatttaaaccagcggaaaagtccatacaataccgaataaaacgctaaaaagaaaaatttgcaatcagttcaattaaaatgagggaaatttaaactttctgtgaatttggtgtagagtatgtttaagctttaacttacttaaatcttatgcaaccgacatctcttcagcgacnnnnnnncgaggcgaaaatctgcaaaa ................................................................................................................................................................................................................ataaaaagcgatttaaaccagcggaaaagtccatacaataccgaataaaacgctaaaaagaaaaatttgcaatcagttcaattaaaatgagggaaatttaaactttctgtgaatttggtgtagagtatgtttaagctttaacttacttaaatcttatgcaaccgacatctcttcagcgacaaaaaaacgaggcgaaaatctgcaaaa HSP 2 e-value: 7.0E-54 bit: 212.0 Len: 107 Query Start:1 Query End:107 Subject Strand: POSITIVE Subject Start: 1 Subject End: 107 acgaacacctatgaaagttataaatgaagttaaaaatggaaaggttaaaaaaggttaggcgctcaatatagactaataaaaacaggagtcaatagagataaatcact.................................................................................................................................................................................................................................................................................................................... acgaacacctatgaaagttataaatgaagttaaaaatggaaaggttaaaaaaggttaggcgctcaatatagactaataaaaacaggagtcaatagagataaatcact.................................................................................................................................................................................................................................................................................................................... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACGAACACCUAUGAAAGUUAUAAAUGAAGUUAAAAAUGGAAAGGUUAAAAAAGGUUAGGCGCUCAAUAUAGACUAAUAAAAACAGGAGUCAAUAGAGAUAAAUCACUAAUUUUAUAAAAUUUACGUUAUUUUUUGAUGAAUAAUUUUUAUUUUUUAGAUUUUUAUUCUGUUUGAUUUAUUUGCUUUUAGAAUAAAAAAAUAAAUUUUAAUAAAAAGCGAUUUAAACCAGCGGAAAAGUCCAUACAAUACCGAAUAAAACGCUAAAAAGAAAAAUUUGCAAUCAGUUCAAUUAAAAUGAGGGAAAUUUAAACUUUCUGUGAAUUUGGUGUAGAGUAUGUUUAAGCUUUAACUUACUUAAAUCUUAUGCAACCGACAUCUCUUCAGCGACAAAAAAACGAGGCGAAAAUCUGCAAAA .....(.(((..............(((((......((((((((.......((((((((...(((..(((.((((..(......)..)))).))))))........))))))))...((((((.(.((((((((((((....(((((((.((((((((..((((((((.((((((.....((((((((....(((((.......)))))...)))))))).))))))....(((....)))..........))))))))..)))))))))))))))....))))).......))))))).).))))))...))))))))......(((((.(.((.(((.((((.(((((.....))))).)))).)))))).))))).)))))..............))).)............. (-70.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUUGCAGAUUUUCGCCUCGUUUUUUUGUCGCUGAAGAGAUGUCGGUUGCAUAAGAUUUAAGUAAGUUAAAGCUUAAACAUACUCUACACCAAAUUCACAGAAAGUUUAAAUUUCCCUCAUUUUAAUUGAACUGAUUGCAAAUUUUUCUUUUUAGCGUUUUAUUCGGUAUUGUAUGGACUUUUCCGCUGGUUUAAAUCGCUUUUUAUUAAAAUUUAUUUUUUUAUUCUAAAAGCAAAUAAAUCAAACAGAAUAAAAAUCUAAAAAAUAAAAAUUAUUCAUCAAAAAAUAACGUAAAUUUUAUAAAAUUAGUGAUUUAUCUCUAUUGACUCCUGUUUUUAUUAGUCUAUAUUGAGCGCCUAACCUUUUUUAACCUUUCCAUUUUUAACUUCAUUUAUAACUUUCAUAGGUGUUCGU ....(((((....((...))....)))))(((((((((((......(((((.....(((((((........))))))).........................(((((((................)))))))...))))).....)))))))))))..............(((((((((.......(((..(((((((((((((((.(((((((((.((((((((((...................))))))))))...............(((((........))))).)))))))))))))))..)))))))))...)))..(((....)))......))))))))).(((((((((............................................))))))))).. (-65.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 308 410 361 65 14 aact:AA01843|5end_sensor_protein;_probable_two-component_system_sensor_histidine_kinase_1238377..1238607_POSITIVE 283 408 364 107 68 aact:AA02103|5end_D-alanyl-D-alanine-endopeptidase;_penicillin-binding_protein_7_1431105..1431335_POSITIVE 281 356 315 47 9 aact:AA01695|5end_carbohydrate_transport_protein_1150445..1150675_POSITIVE 279 388 342 129 83 aact:AA00199|5end_hypothetical_protein_138575..138805_POSITIVE 270 264 227 172 134 aact:AA02939|5end_phosphoserine_phosphatase_2056881..2057111_POSITIVE 262 410 362 178 128 aact:AA00365|5end_30S_ribosomal_protein_S19_245914..246144_POSITIVE 255 402 364 224 192 aact:AA02673|5end_gluconate_utilization_operon_repressor_1858913..1859143_POSITIVE 253 402 370 198 169 aact:AA00636|5end_MrsA_protein_(phosphoglucomutase/phosphomannomutase)_436780..437010_POSITIVE 249 407 363 225 177 aact:AA02429|5end_methionine_aminopeptidase_1674320..1674550_POSITIVE 249 407 363 90 42 aact:AA02427|5end_hypothetical_protein_1674185..1674415_POSITIVE 246 410 366 117 77 aact:AA01763|5end_conserved_hypothetical_protein_(possible_transcriptional_regulatory_protein)_1190643..1190873_POSITIVE 244 405 362 165 116 aact:AA01651|5end_hypothetical_protein_1119796..1120026_POSITIVE 244 241 216 153 128 aact:AA00790|5end_recombination_DNA_repair_protein_542455..542685_POSITIVE 241 409 368 171 123 aact:AA02091|5end_hypothetical_protein_1424441..1424671_POSITIVE 240 408 384 157 135 aact:AA02706|5end_2-oxoglutarate_dehydrogenase_E1_component_(decarboxylase_component)_1886843..1887073_POSITIVE 240 408 384 31 9 aact:AA02705|5end_hypothetical_protein_1886717..1886947_POSITIVE 240 236 199 146 110 aact:AA01639|5end_hypothetical_protein_1109136..1109366_POSITIVE 240 252 217 226 185 aact:AA00665|5end_plasmid_protein_457195..457425_POSITIVE 238 388 343 185 138 aact:AA01335|5end_primosomal_protein_N'_901993..902223_POSITIVE 237 337 292 73 20 aact:AA01648|5end_alpha-amylase_protein;_1,4-alpha-D-glucan_glucanohydrolase_1115170..1115400_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 308 410 361 75 24 aact:AA01842|3end_conserved_hypothetical_protein_1238467..1238617_POSITIVE 283 408 364 110 71 aact:AA02101|3end_penicillin-binding_protein_7_1431188..1431338_POSITIVE 279 388 342 117 71 aact:AA00198|3end_conserved_hypothetical_protein_(Cytosine_deaminase-related_enzyme)_138643..138793_POSITIVE 255 402 364 148 116 aact:AA02671|3end_gluconokinase_1858917..1859067_POSITIVE 249 407 363 51 3 aact:AA02426|3end_uridylyltransferase_1674226..1674376_POSITIVE 244 405 362 138 89 aact:AA01650|3end_maltose_transport_inner_membrane_protein_1119849..1119999_POSITIVE 242 340 296 130 78 aact:AA00084|3end_aminotransferase_62105..62255_POSITIVE 240 408 384 29 7 aact:AA02704|3end_dihydrolipoamide_succinyltransferase_1886795..1886945_POSITIVE 237 337 292 85 32 aact:AA01646|3end_hypothetical_protein_1115262..1115412_POSITIVE 235 218 181 54 16 aact:AA01835|3end_conserved_hypothetical_protein_1235389..1235539_POSITIVE 233 75 31 140 86 aact:AA00414|3end_possible_histidinol-phosphatase_281533..281683_POSITIVE 231 408 361 142 83 aact:AA02543|3end_conserved_hypothetical_protein_1773434..1773584_POSITIVE 229 353 314 74 37 aact:AA00039|3end_cytochrome_c-type_biogenesis_protein_31438..31588_POSITIVE 228 403 371 85 56 aact:AA02032|3end_hypothetical_protein_1385294..1385444_POSITIVE 227 336 296 52 3 aact:AA00029|3end_type_III_restriction-modification_system:_methylase_24943..25093_POSITIVE 226 403 369 148 119 aact:AA02911|3end_hypothetical_protein_2039235..2039385_POSITIVE 225 403 365 75 37 aact:AA02549|3end_iron_(chelated)_ABC_transporter,_periplasmic-binding_protein_1776828..1776978_POSITIVE 225 401 364 60 33 aact:AA01830|3end_2,3-cyclic-nucleotide_2-phosphodiesterase_1233609..1233759_POSITIVE 223 269 226 125 80 aact:AA01889|3end_conserved_hypothetical_protein_(possible_permease)_1274590..1274740_POSITIVE 222 409 362 136 78 aact:AA02409|3end_DNA_ligase_1655404..1655554_POSITIVE