Origin IGS: cttaaatctccttgatttacatgtaatttttaatattgcgtagaaatgaaaattaggaccggaaaagtcatttccgtctacgcttttttaaaataccaaatatttttctaactaaaaaatccatcacttcatattgaataaaaaaataaagagcataaccatttgaaataaaataaaataatctttaaaaatagttcatagcatactatcaaaatcacatcagaccagttagttagggaactttttgaccaaaagttcacgttgtttttccgctttaataacagtcggttaacaaacgacgttaaaattagcaacaattatcatttgcaaacagaatccaaataagctaaattgccccgcgataaatttcatacttttattaacccttacaggagcattt .........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 aaatgctcctgtaagggttaataaaagtatgaaatttatcgcggggcaatttagcttatttggattctgtttgcaaatgataattgttgctaattttaacgtcgtttgttaaccgactgttattaaagcggaaaaacaacgtgaacttttggtcaaaaagttccctaactaactggtctgatgtgattttgatagtatgctatgaactatttttaaagattattttattttatttcaaatggttatgctctttatttttttattcaatatgaagtgatggattttttagttagaaaaatatttggtattttaaaaaagcgtagacggaaatgacttttccggtcctaattttcatttctacgcaatattaaaaattacatgtaaatcaaggagatttaag Mask Tandem Repeat Region ================================================ cttaaatctccttgatttacatgtaatttttaatattgcgtagaaatgaaaattaggaccggaaaagtcatttccgtctacgcttttttaaaataccaaatatttttctaactaaaaaatccatcacttcatattgaataaaaaaataaagagcataaccatttgaaataaaataaaataatctttaaaaatagttcatagcatactatcaaaatcacatcagaccagttagttagggaactttttgaccaaaagttcacgttgtttttccgctttaataacagtcggttaacaaacgacgttaaaattagcaacaattatcatttgcaaacagaatccaaataagctaaattgccccgcgataaatttcatacttttattaacccttacaggagcattt Find is-nt database================================================ Query_seq: AA02864:AA02865|AA02864:AA02865:glycerol-3-phosphate transport protein:iron-regulated outer membrane protein (omp64):->->:2010253..2010652 400 cttaaatctccttgatttacatgtaatttttaatattgcgtagaaatgaaaattaggaccggaaaagtcatttccgtctacgcttttttaaaataccaaatatttttctaactaaaaaatccatcacttcatattgaataaaaaaataaagagcataaccatttgaaataaaataaaataatctttaaaaatagttcatagcatactatcaaaatcacatcagaccagttagttagggaactttttgaccaaaagttcacgttgtttttccgctttaataacagtcggttaacaaacgacgttaaaattagcaacaattatcatttgcaaacagaatccaaataagctaaattgccccgcgataaatttcatacttttattaacccttacaggagcattt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02864:AA02865|AA02864:AA02865:glycerol-3-phosphate transport protein:iron-regulated outer membrane protein (omp64):->->:2010253..2010652 400 cttaaatctccttgatttacatgtaatttttaatattgcgtagaaatgaaaattaggaccggaaaagtcatttccgtctacgcttttttaaaataccaaatatttttctaactaaaaaatccatcacttcatattgaataaaaaaataaagagcataaccatttgaaataaaataaaataatctttaaaaatagttcatagcatactatcaaaatcacatcagaccagttagttagggaactttttgaccaaaagttcacgttgtttttccgctttaataacagtcggttaacaaacgacgttaaaattagcaacaattatcatttgcaaacagaatccaaataagctaaattgccccgcgataaatttcatacttttattaacccttacaggagcattt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02864:AA02865|AA02864:AA02865:glycerol-3-phosphate transport protein:iron-regulated outer membrane protein (omp64):->->:2010253..2010652 400 cttaaatctccttgatttacatgtaatttttaatattgcgtagaaatgaaaattaggaccggaaaagtcatttccgtctacgcttttttaaaataccaaatatttttctaactaaaaaatccatcacttcatattgaataaaaaaataaagagcataaccatttgaaataaaataaaataatctttaaaaatagttcatagcatactatcaaaatcacatcagaccagttagttagggaactttttgaccaaaagttcacgttgtttttccgctttaataacagtcggttaacaaacgacgttaaaattagcaacaattatcatttgcaaacagaatccaaataagctaaattgccccgcgataaatttcatacttttattaacccttacaggagcattt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 cttaaatctccttgatttacatgtaatttttaatattgcgtagaaatgaaaattaggaccggaaaagtcatttccgtctacgcttttttaaaataccaaatatttttctaactaaaaaatccatcacttcatattgaataaaaaaataaagagcataaccatttgaaataaaataaaataatctttaaaaatagttcatagcatactatcaaaatcacatcagaccagttagttagggaactttttgaccaaaagttcacgttgtttttccgctttaataacagtcggttaacaaacgacgttaaaattagcaacaattatcatttgcaaacagaatccaaataagctaaattgccccgcgataaatttcatacttttattaacccttacaggagcattt Predict ORF larger than 30AA ================================================ Protein_Len: 45 Strand: + Start: 208 End: 342 ............................................................................................................................................................................................................... M K I T S D Q L V R E L F D Q K F T L F F R F N N S R L T N D V K I S N N Y H L Q T E S K .......................................................... Protein_Len: 60 Strand: - Start: 132 End: 317 ................................................................................................................................... Y F F L S C L W K F Y F L I I K L F L E Y C V I L I V D S W N T L S S K S W F N V N N K R K L L L R N V F S T L I L L M ................................................................................... Protein_Len: 33 Strand: - Start: 71 End: 169 ...................................................................... K R R R K K L I G F I K R V L F D M V E Y Q I F F Y L A Y G N S M ....................................................................................................................................................................................................................................... cttaaatctccttgatttacatgtaatttttaatattgcgtagaaatgaaaattaggaccggaaaagtcatttccgtctacgcttttttaaaataccaaatatttttctaactaaaaaatccatcacttcatattgaataaaaaaataaagagcataaccatttgaaataaaataaaataatctttaaaaatagttcatagcatactatcaaaatcacatcagaccagttagttagggaactttttgaccaaaagttcacgttgtttttccgctttaataacagtcggttaacaaacgacgttaaaattagcaacaattatcatttgcaaacagaatccaaataagctaaattgccccgcgataaatttcatacttttattaacccttacaggagcattt 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: 162 End: 191 .................................................................................................................................................................TTTGAAATAAAATAAAATAATCTTTAAAAA................................................................................................................................................................................................................. Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ cttaaatctccttgatttacatgtaatttttaatattgcgtagaaatgaaaattaggaccggaaaagtcatttccgtctacgcttttttaaaataccaaatatttttctaactaaaaaatccatcacttcatattgaataaaaaaataaagagcataaccatttgaaataaaataaaataatctttaaaaatagttcatagcatactatcaaaatcacatcagaccagttagttagggaactttttgaccaaaagttcacgttgtttttccgctttaataacagtcggttaacaaacgacgttaaaattagcaacaattatcatttgcaaacagaatccaaataagctaaattgccccgcgataaatttcatacttttattaacccttacaggagcattt Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 45 HP_score: -3.8 Tail_Score: -2.53268 Start: 57 End: 78 Full_Region: ttttaaaaaagcgta gacggaaa tgact tttccggtc ctaattttcatttct ........................................................gacggaaatgacttttccggtc.................................................................................................................................................................................................................................................................................................................................. TransTerm Strand: + Conf: 57 HP_score: -2.3 Tail_Score: -4.45259 Start: 235 End: 261 Full_Region: TCAGACCAGTTAGTT AGGGAACTTTT TGACC AAAAGTTCACG TTGTTTTTCCGCTTT ..........................................................................................................................................................................................................................................AGGGAACTTTTTGACCAAAAGTTCACG........................................................................................................................................... TransTerm Strand: + Conf: 58 HP_score: -5.8 Tail_Score: -3.25528 Start: 236 End: 260 Full_Region: CAGACCAGTTAGTTA GGGAACTTTT TGACC AAAAGTTCAC GTTGTTTTTCCGCTT ...........................................................................................................................................................................................................................................GGGAACTTTTTGACCAAAAGTTCAC............................................................................................................................................ Find igs database================================================ Query_seq: AA02864:AA02865|AA02864:AA02865:glycerol-3-phosphate transport protein:iron-regulated outer membrane protein (omp64):->->:2010253..2010652 400 cttaaatctccttgatttacatgtaatttttaatattgcgtagaaatgaaaattaggaccggaaaagtcatttccgtctacgcttttttaaaataccaaatatttttctaactaaaaaatccatcacttcatattgaataaaaaaataaagagcataaccatttgaaataaaataaaataatctttaaaaatagttcatagcatactatcaaaatcacatcagaccagttagttagggaactttttgaccaaaagttcacgttgtttttccgctttaataacagtcggttaacaaacgacgttaaaattagcaacaattatcatttgcaaacagaatccaaataagctaaattgccccgcgataaatttcatacttttattaacccttacaggagcattt Intra-Species Hit: Count: 1 Min: 1 Max: 400 Len: 400 Subject: aact_AA02864_AA02865|glycerol-3-phosphate transport protein:iron-regulated outer membrane protein (omp64)|POSITIVE:POSITIVE|[2010253,2010652]|400 HSP 1 e-value: 1.0E-113 bit: 410.0 Len: 207 Query Start:194 Query End:400 Subject Strand: POSITIVE Subject Start: 194 Subject End: 400 .................................................................................................................................................................................................gttcatagcatactatcaaaatcacatcagaccagttagttagggaactttttgaccaaaagttcacgttgtttttccgctttaataacagtcggttaacaaacgacgttaaaattagcaacaattatcatttgcaaacagaatccaaataagctaaattgccccgcgataaatttcatacttttattaacccttacaggagcattt .................................................................................................................................................................................................gttcatagcatactatcaaaatcacatcagaccagttagttagggaactttttgaccaaaagttcacgttgtttttccgctttaataacagtcggttaacaaacgacgttaaaattagcaacaattatcatttgcaaacagaatccaaataagctaaattgccccgcgataaatttcatacttttattaacccttacaggagcattt HSP 2 e-value: 3.0E-71 bit: 270.0 Len: 136 Query Start:1 Query End:136 Subject Strand: POSITIVE Subject Start: 1 Subject End: 136 cttaaatctccttgatttacatgtaatttttaatattgcgtagaaatgaaaattaggaccggaaaagtcatttccgtctacgcttttttaaaataccaaatatttttctaactaaaaaatccatcacttcatattg........................................................................................................................................................................................................................................................................ cttaaatctccttgatttacatgtaatttttaatattgcgtagaaatgaaaattaggaccggaaaagtcatttccgtctacgcttttttaaaataccaaatatttttctaactaaaaaatccatcacttcatattg........................................................................................................................................................................................................................................................................ Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUUAAAUCUCCUUGAUUUACAUGUAAUUUUUAAUAUUGCGUAGAAAUGAAAAUUAGGACCGGAAAAGUCAUUUCCGUCUACGCUUUUUUAAAAUACCAAAUAUUUUUCUAACUAAAAAAUCCAUCACUUCAUAUUGAAUAAAAAAAUAAAGAGCAUAACCAUUUGAAAUAAAAUAAAAUAAUCUUUAAAAAUAGUUCAUAGCAUACUAUCAAAAUCACAUCAGACCAGUUAGUUAGGGAACUUUUUGACCAAAAGUUCACGUUGUUUUUCCGCUUUAAUAACAGUCGGUUAACAAACGACGUUAAAAUUAGCAACAAUUAUCAUUUGCAAACAGAAUCCAAAUAAGCUAAAUUGCCCCGCGAUAAAUUUCAUACUUUUAUUAACCCUUACAGGAGCAUUU ...(((((((((.(((((..(((((((.......)))))))..((((((.((((.((((.(((((.....)))))))))..(((.(((((......((((...((..((((((((....((.........................((((((........((((......)))).......))))))...(((((.........))))).............))....))))))))..))...))))...........(((((((((..(((((........)).))).....))))))))))))))..)))...)))).)))))).......)))))............(((((...)))))...........................))))).)))) (-61.66) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAUGCUCCUGUAAGGGUUAAUAAAAGUAUGAAAUUUAUCGCGGGGCAAUUUAGCUUAUUUGGAUUCUGUUUGCAAAUGAUAAUUGUUGCUAAUUUUAACGUCGUUUGUUAACCGACUGUUAUUAAAGCGGAAAAACAACGUGAACUUUUGGUCAAAAAGUUCCCUAACUAACUGGUCUGAUGUGAUUUUGAUAGUAUGCUAUGAACUAUUUUUAAAGAUUAUUUUAUUUUAUUUCAAAUGGUUAUGCUCUUUAUUUUUUUAUUCAAUAUGAAGUGAUGGAUUUUUUAGUUAGAAAAAUAUUUGGUAUUUUAAAAAAGCGUAGACGGAAAUGACUUUUCCGGUCCUAAUUUUCAUUUCUACGCAAUAUUAAAAAUUACAUGUAAAUCAAGGAGAUUUAAG ((((.(((((((((...((((((.((.((.((((((((((((.(((((...(((((.(((((((...((((((((((((((....((((.......)))))))))))))...(((.((........)))))..)))))..(.((((((((.....)))))))).)........((((((.....(((.((.((((....)))).))..))).....))))))...........)))))))))))))))))............(((.....))))))))))))))).)).))...(((((((...)))))))......(((((((.((((((((((.....))))...))))))...)))))))..))))))...))))..........)))))))))... (-79.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 294 84 43 225 187 aact:AA01376|5end_hypothetical_protein_931163..931393_POSITIVE 294 84 43 82 44 aact:AA01375|5end_hypothetical_protein_931020..931250_POSITIVE 284 76 39 126 90 aact:AA01877|5end_conserved_hypothetical_protein_1264115..1264345_POSITIVE 272 289 251 53 12 aact:AA02961|5end_pyrroline-5-carboxylate_reductase_2070785..2071015_POSITIVE 271 80 35 98 42 aact:AA00424|5end_hypothetical_protein_287123..287353_POSITIVE 270 300 252 190 144 aact:AA00925|5end_hypothetical_protein_635364..635594_POSITIVE 270 300 252 87 41 aact:AA00924|5end_hypothetical_protein_635261..635491_POSITIVE 265 290 246 121 76 aact:AA02442|5end_thioredoxin-family_protein_1685704..1685934_POSITIVE 263 80 38 182 141 aact:AA01890|5end_cell-cycle_protein_1274544..1274774_POSITIVE 255 370 326 211 166 aact:AA02656|5end_possible_polysaccharide_polymerization_protein_1850947..1851177_POSITIVE 255 397 351 44 5 aact:AA01422|5end_cell_division_protein_E,_ABC_system_ATP-binding_protein_956009..956239_POSITIVE 252 392 351 66 32 aact:AA01891|5end_pyridoxine_kinase_1275922..1276152_POSITIVE 251 85 58 135 108 aact:AA01957|5end_conserved_hypothetical_protein_1323211..1323441_POSITIVE 249 369 324 72 25 aact:AA01251|5end_hypothetical_protein_851825..852055_POSITIVE 248 266 221 203 157 aact:AA00164|5end_dephospho-CoA_kinase_(dephosphocoenzyme_A_kinase)_116745..116975_POSITIVE 246 236 193 216 159 aact:AA01895|5end_hypothetical_protein_1279574..1279804_POSITIVE 244 265 221 213 176 aact:AA01368|5end_50S_ribosomal_protein_L19_924485..924715_POSITIVE 242 274 235 228 179 aact:AA00665|5end_plasmid_protein_457195..457425_POSITIVE 240 397 354 170 124 aact:AA00895|5end_hypothetical_protein_621285..621515_POSITIVE 238 286 246 227 174 aact:AA01685|5end_molybdenum_ABC_transporter,_ATP-binding_protein_1136979..1137209_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 294 84 43 79 41 aact:AA01374|3end_tRNA/rRNA_methyltransferase_931097..931247_POSITIVE 284 76 39 62 26 aact:AA01876|3end_PTS_system,_IIBC_components_1264131..1264281_POSITIVE 283 75 37 60 29 aact:AA00839|3end_UDP-MurNAc-pentapeptide_phosphotransferase_579784..579934_POSITIVE 271 80 35 119 63 aact:AA00423|3end_GTP-binding_protein_287224..287374_POSITIVE 270 300 252 66 20 aact:AA00923|3end_diaminopimelate_decarboxylase_635320..635470_POSITIVE 269 273 232 149 101 aact:AA01033|3end_Na(+)-translocating_NADH-quinone_reductase_subunit_A_723435..723585_POSITIVE 265 290 246 128 83 aact:AA02440|3end_ABC_transporter,_ATP-binding_protein_1685791..1685941_POSITIVE 263 80 38 148 107 aact:AA01889|3end_conserved_hypothetical_protein_(possible_permease)_1274590..1274740_POSITIVE 251 85 58 130 103 aact:AA01956|3end_3-deoxy-manno-octulosonate_cytidylyltransferase_1323286..1323436_POSITIVE 248 266 221 150 104 aact:AA00163|3end_type_IV_prepilin_peptidase;_type_II_secretion_pathway_related_protein_116772..116922_POSITIVE 239 400 359 104 58 aact:AA00634|3end_DNA_polymerase_IV_(Pol_IV)_435831..435981_POSITIVE 234 97 58 150 123 aact:AA00323|3end_conserved_hypothetical_protein_(possible_SAM-dependent_methyltransferase)_220222..220372_POSITIVE 233 63 23 140 97 aact:AA00452|3end_phosphomannomutase;_phosphoglucomutase_317023..317173_POSITIVE 232 78 33 113 53 aact:AA02532|3end_conserved_hypothetical_protein_1762009..1762159_POSITIVE 231 300 255 99 42 aact:AA01995|3end_conserved_hypothetical_protein_(possible_chorismate_mutase)_1355394..1355544_POSITIVE 230 87 50 53 18 aact:AA01040|3end_possible_lipoprotein_724946..725096_POSITIVE 229 97 57 109 62 aact:AA02069|3end_alkylphosphonate_uptake_protein_1406531..1406681_POSITIVE 227 396 351 64 9 aact:AA01773|3end_hypothetical_protein_1195112..1195262_POSITIVE 225 277 236 150 93 aact:AA02959|3end_pyrroline-5-carboxylate_(P5C)_reductase_2070976..2071126_POSITIVE 223 86 46 132 82 aact:AA01561|3end_conserved_hypothetical_protein_1046971..1047121_POSITIVE