Origin IGS: taacctgtcaaagacgtaaaaaatgaaggattacgccaatgacgtttaatccttcattgttattgtggcgggcacaaatttacggaacaagggaaccgttttaaaataagccaccgctaataccacgccgttgcgtgatacttctcacaaaaacggaagtttttatttgccaaaggaaatcgcataggcatatgctctcttccgtttaataaaaaatcttatggaatcaaaaataaattaaaggagttcgt .........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 acgaactcctttaatttatttttgattccataagattttttattaaacggaagagagcatatgcctatgcgatttcctttggcaaataaaaacttccgtttttgtgagaagtatcacgcaacggcgtggtattagcggtggcttattttaaaacggttcccttgttccgtaaatttgtgcccgccacaataacaatgaaggattaaacgtcattggcgtaatccttcattttttacgtctttgacaggtta Mask Tandem Repeat Region ================================================ taacctgtcaaagacgtaaaaaatgaaggattacgccaatgacgtttaatccttcattgttattgtggcgggcacaaatttacggaacaagggaaccgttttaaaataagccaccgctaataccacgccgttgcgtgatacttctcacaaaaacggaagtttttatttgccaaaggaaatcgcataggcatatgctctcttccgtttaataaaaaatcttatggaatcaaaaataaattaaaggagttcgt Find is-nt database================================================ Query_seq: AA02476:AA02477|AA02476:AA02477:conserved hypothetical protein:PTS system, N-acetylglucosamine-permease IIABC component:->->:1712878..1713128 251 taacctgtcaaagacgtaaaaaatgaaggattacgccaatgacgtttaatccttcattgttattgtggcgggcacaaatttacggaacaagggaaccgttttaaaataagccaccgctaataccacgccgttgcgtgatacttctcacaaaaacggaagtttttatttgccaaaggaaatcgcataggcatatgctctcttccgtttaataaaaaatcttatggaatcaaaaataaattaaaggagttcgt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02476:AA02477|AA02476:AA02477:conserved hypothetical protein:PTS system, N-acetylglucosamine-permease IIABC component:->->:1712878..1713128 251 taacctgtcaaagacgtaaaaaatgaaggattacgccaatgacgtttaatccttcattgttattgtggcgggcacaaatttacggaacaagggaaccgttttaaaataagccaccgctaataccacgccgttgcgtgatacttctcacaaaaacggaagtttttatttgccaaaggaaatcgcataggcatatgctctcttccgtttaataaaaaatcttatggaatcaaaaataaattaaaggagttcgt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02476:AA02477|AA02476:AA02477:conserved hypothetical protein:PTS system, N-acetylglucosamine-permease IIABC component:->->:1712878..1713128 251 taacctgtcaaagacgtaaaaaatgaaggattacgccaatgacgtttaatccttcattgttattgtggcgggcacaaatttacggaacaagggaaccgttttaaaataagccaccgctaataccacgccgttgcgtgatacttctcacaaaaacggaagtttttatttgccaaaggaaatcgcataggcatatgctctcttccgtttaataaaaaatcttatggaatcaaaaataaattaaaggagttcgt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taacctgtcaaagacgtaaaaaatgaaggattacgccaatgacgtttaatccttcattgttattgtggcgggcacaaatttacggaacaagggaaccgttttaaaataagccaccgctaataccacgccgttgcgtgatacttctcacaaaaacggaagtttttatttgccaaaggaaatcgcataggcatatgctctcttccgtttaataaaaaatcttatggaatcaaaaataaattaaaggagttcgt Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: - Start: 104 End: 193 ....................................................................................................... F L G G S I G R R Q T I S R V F V S T K I Q W L F D C L C M .......................................................... taacctgtcaaagacgtaaaaaatgaaggattacgccaatgacgtttaatccttcattgttattgtggcgggcacaaatttacggaacaagggaaccgttttaaaataagccaccgctaataccacgccgttgcgtgatacttctcacaaaaacggaagtttttatttgccaaaggaaatcgcataggcatatgctctcttccgtttaataaaaaatcttatggaatcaaaaataaattaaaggagttcgt 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: 78 End: 107 .............................................................................ATTTACGGAACAAGGGAACCGTTTTAAAAT................................................................................................................................................ Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ taacctgtcaaagacgtaaaaaatgaaggattacgccaatgacgtttaatccttcattgttattgtggcgggcacaaatttacggaacaagggaaccgttttaaaataagccaccgctaataccacgccgttgcgtgatacttctcacaaaaacggaagtttttatttgccaaaggaaatcgcataggcatatgctctcttccgtttaataaaaaatcttatggaatcaaaaataaattaaaggagttcgt Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 45 HP_score: -2.3 Tail_Score: -3.28712 Start: 18 End: 62 Full_Region: ACCTGTCAAAGACGT AAAAAATGAAGGATTACGC CAATGAC GTTTAATCCTTCATTGTTA TTGTGGCGGGCACAA .................AAAAAATGAAGGATTACGCCAATGACGTTTAATCCTTCATTGTTA............................................................................................................................................................................................. TransTerm Strand: - Conf: 84 HP_score: -5.8 Tail_Score: -5.18561 Start: 24 End: 56 Full_Region: ccgccacaataacaa tgaaggattaaacgtc att ggcgtaatccttca ttttttacgtctttg .......................tgaaggattaaacgtcattggcgtaatccttca................................................................................................................................................................................................... Find igs database================================================ Query_seq: AA02476:AA02477|AA02476:AA02477:conserved hypothetical protein:PTS system, N-acetylglucosamine-permease IIABC component:->->:1712878..1713128 251 taacctgtcaaagacgtaaaaaatgaaggattacgccaatgacgtttaatccttcattgttattgtggcgggcacaaatttacggaacaagggaaccgttttaaaataagccaccgctaataccacgccgttgcgtgatacttctcacaaaaacggaagtttttatttgccaaaggaaatcgcataggcatatgctctcttccgtttaataaaaaatcttatggaatcaaaaataaattaaaggagttcgt Intra-Species Hit: Count: 1 Min: 1 Max: 251 Len: 251 Subject: aact_AA02476_AA02477|conserved hypothetical protein:PTS system, N-acetylglucosamine-permease IIABC component|POSITIVE:POSITIVE|[1712878,1713128]|251 HSP 1 e-value: 1.0E-140 bit: 498.0 Len: 251 Query Start:1 Query End:251 Subject Strand: POSITIVE Subject Start: 1 Subject End: 251 taacctgtcaaagacgtaaaaaatgaaggattacgccaatgacgtttaatccttcattgttattgtggcgggcacaaatttacggaacaagggaaccgttttaaaataagccaccgctaataccacgccgttgcgtgatacttctcacaaaaacggaagtttttatttgccaaaggaaatcgcataggcatatgctctcttccgtttaataaaaaatcttatggaatcaaaaataaattaaaggagttcgt taacctgtcaaagacgtaaaaaatgaaggattacgccaatgacgtttaatccttcattgttattgtggcgggcacaaatttacggaacaagggaaccgttttaaaataagccaccgctaataccacgccgttgcgtgatacttctcacaaaaacggaagtttttatttgccaaaggaaatcgcataggcatatgctctcttccgtttaataaaaaatcttatggaatcaaaaataaattaaaggagttcgt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAACCUGUCAAAGACGUAAAAAAUGAAGGAUUACGCCAAUGACGUUUAAUCCUUCAUUGUUAUUGUGGCGGGCACAAAUUUACGGAACAAGGGAACCGUUUUAAAAUAAGCCACCGCUAAUACCACGCCGUUGCGUGAUACUUCUCACAAAAACGGAAGUUUUUAUUUGCCAAAGGAAAUCGCAUAGGCAUAUGCUCUCUUCCGUUUAAUAAAAAAUCUUAUGGAAUCAAAAAUAAAUUAAAGGAGUUCGU ...(((((((.....((((..((((((((((((.((.......)).)))))))))))).))))..)))))))............((((..(((((.............(((....))).....(((((....)))))....)))))....(((((((((....(((.((((...............)))).)))....)))))))))......................................)))).. (-58.56) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACGAACUCCUUUAAUUUAUUUUUGAUUCCAUAAGAUUUUUUAUUAAACGGAAGAGAGCAUAUGCCUAUGCGAUUUCCUUUGGCAAAUAAAAACUUCCGUUUUUGUGAGAAGUAUCACGCAACGGCGUGGUAUUAGCGGUGGCUUAUUUUAAAACGGUUCCCUUGUUCCGUAAAUUUGUGCCCGCCACAAUAACAAUGAAGGAUUAAACGUCAUUGGCGUAAUCCUUCAUUUUUUACGUCUUUGACAGGUUA ......(((((((...............................(((((((((...(((((....))))).((((((...)).)))).....)))))))))(((((...((((((((((....)))))))))).((((..((..((((....((((..(....)..))))))))..))..)))))))))......)))))))......((((..(((((((...........)))))))..))))...... (-65.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 355 130 84 77 29 aact:AA00596|5end_uridylate_kinase_407496..407726_POSITIVE 337 100 51 211 151 aact:AA01185|5end_conserved_hypothetical_protein_(possible_membrane_protein)_811051..811281_POSITIVE 337 160 111 202 154 aact:AA00250|5end_lipoate_biosynthesis_protein_A_175496..175726_POSITIVE 333 117 72 91 43 aact:AA00141|5end_hypoxanthine_phosphoribosyl_transferase_(HPRT)_100814..101044_POSITIVE 331 150 110 85 39 aact:AA01056|5end_conserved_hypothetical_protein_733867..734097_POSITIVE 321 98 51 43 2 aact:AA01066|5end_conserved_hypothetical_protein_738380..738610_POSITIVE 318 70 22 117 57 aact:AA00459|5end_hypothetical_protein_320851..321081_POSITIVE 316 141 110 230 200 aact:AA02558|5end_conserved_hypothetical_protein_1780930..1781160_POSITIVE 316 139 110 61 23 aact:AA01868|5end_biotin_synthetase_1255545..1255775_POSITIVE 316 100 54 159 114 aact:AA00381|5end_ornithine_carbamoyltransferase_257470..257700_POSITIVE 310 130 83 61 1 aact:AA02439|5end_integral_membrane_protein;_possible_ABC_transporter_permease_1683902..1684132_POSITIVE 309 130 84 80 36 aact:AA01303|5end_competence_protein_A_881996..882226_POSITIVE 308 137 94 174 140 aact:AA02369|5end_conserved_hypothetical_protein_1624248..1624478_POSITIVE 308 134 95 77 42 aact:AA00603|5end_undecaprenyl_pyrophosphate_synthetase_(UPPS)_410283..410513_POSITIVE 305 138 96 99 54 aact:AA01054|5end_conserved_hypothetical_protein_733678..733908_POSITIVE 304 79 34 71 11 aact:AA00712|5end_chaperone_protein_hscB,_heat_shock_cognate_488228..488458_POSITIVE 303 140 96 214 162 aact:AA01757|5end_cobalt_transport_ATP-binding_protein_1187137..1187367_POSITIVE 303 139 91 166 116 aact:AA01645|5end_ferric_transport_ABC-related_ATP-binding_protein_1114016..1114246_POSITIVE 302 137 111 226 204 aact:AA01522|5end_conserved_hypothetical_protein_1022840..1023070_POSITIVE 300 100 51 104 45 aact:AA02358|5end_homoserine_kinase_1617128..1617358_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 333 117 72 69 21 aact:AA00140|3end_hypothetical_protein_100872..101022_POSITIVE 331 150 110 78 32 aact:AA01054|3end_conserved_hypothetical_protein_733940..734090_POSITIVE 318 140 96 54 8 aact:AA01842|3end_conserved_hypothetical_protein_1238467..1238617_POSITIVE 318 70 22 70 10 aact:AA00458|3end_nickel-binding_periplasmic_protein_320884..321034_POSITIVE 316 75 36 48 5 aact:AA01260|3end_hypothetical_protein_855758..855908_POSITIVE 316 100 54 146 101 aact:AA00380|3end_carbamate_kinase_257537..257687_POSITIVE 310 130 83 71 11 aact:AA02438|3end_membrane_protein;_possible_ABC_transporter_permease_protein_1683992..1684142_POSITIVE 309 130 84 99 55 aact:AA01301|3end_competence_protein_B_882095..882245_POSITIVE 308 137 94 132 98 aact:AA02368|3end_conserved_hypothetical_protein_1624286..1624436_POSITIVE 305 138 96 88 43 aact:AA01053|3end_conserved_hypothetical_protein_733747..733897_POSITIVE 304 160 112 48 1 aact:AA00249|3end_cysteinyl-tRNA_synthetase_(cysteine--tRNA_ligase)_175422..175572_POSITIVE 300 100 51 88 29 aact:AA02357|3end_bifunctional_protein:_aspartokinase_I;_homoserine_dehydrogenaseI_1617192..1617342_POSITIVE 300 94 55 83 32 aact:AA00745|3end_galactokinase_512394..512544_POSITIVE 295 135 92 58 11 aact:AA01859|3end_hypothetical_protein_1251890..1252040_POSITIVE 288 58 15 69 24 aact:AA02476|3end_conserved_hypothetical_protein_1712817..1712967_POSITIVE 288 104 65 111 75 aact:AA02371|3end_oxygen-independent_coproporphyrinogen_III_oxidase_1625817..1625967_POSITIVE 287 207 168 116 66 aact:AA01868|3end_biotin_synthetase_1256626..1256776_POSITIVE 287 137 91 134 78 aact:AA00007|3end_superoxide_dismutase_[Cu-Zn]_precursor_5055..5205_POSITIVE 286 137 91 121 58 aact:AA02228|3end_regulatory_protein,_sorC_family_1516011..1516161_POSITIVE 286 70 28 130 85 aact:AA00340|3end_NADP(H)_oxidoreductase_(NAD(P)H_dehydrogenase_(quinone))_229425..229575_POSITIVE