Origin IGS: taagtagaaatcatattcagaaagcatacatcataaaatgtgtgcttttttattgagcacatctttttattgtgcaataatttgtacaatgtttttattaaggagaataac .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 gttattctccttaataaaaacattgtacaaattattgcacaataaaaagatgtgctcaataaaaaagcacacattttatgatgtatgctttctgaatatgatttctactta Mask Tandem Repeat Region ================================================ taagtagaaatcatattcagaaagcatacatcataaaatgtgtgcttttttattgagcacatctttttattgtgcaataatttgtacaatgtttttattaaggagaataac Find is-nt database================================================ Query_seq: AA02656:AA02657|AA02656:AA02657:possible polysaccharide polymerization protein:conserved hypothetical protein:->->:1852041..1852151 111 taagtagaaatcatattcagaaagcatacatcataaaatgtgtgcttttttattgagcacatctttttattgtgcaataatttgtacaatgtttttattaaggagaataac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02656:AA02657|AA02656:AA02657:possible polysaccharide polymerization protein:conserved hypothetical protein:->->:1852041..1852151 111 taagtagaaatcatattcagaaagcatacatcataaaatgtgtgcttttttattgagcacatctttttattgtgcaataatttgtacaatgtttttattaaggagaataac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02656:AA02657|AA02656:AA02657:possible polysaccharide polymerization protein:conserved hypothetical protein:->->:1852041..1852151 111 taagtagaaatcatattcagaaagcatacatcataaaatgtgtgcttttttattgagcacatctttttattgtgcaataatttgtacaatgtttttattaaggagaataac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taagtagaaatcatattcagaaagcatacatcataaaatgtgtgcttttttattgagcacatctttttattgtgcaataatttgtacaatgtttttattaaggagaataac Predict ORF larger than 30AA ================================================ Protein_Len: 32 Strand: - Start: 3 End: 98 .. T S I M N L F C V D Y F T H K K I S C M K K N H L L K Y L T K M ............. taagtagaaatcatattcagaaagcatacatcataaaatgtgtgcttttttattgagcacatctttttattgtgcaataatttgtacaatgtttttattaaggagaataac 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: 52 End: 81 ...................................................ATTGAGCACATCTTTTTATTGTGCAATAAT.............................. Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ taagtagaaatcatattcagaaagcatacatcataaaatgtgtgcttttttattgagcacatctttttattgtgcaataatttgtacaatgtttttattaaggagaataac Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 77 HP_score: -5.4 Tail_Score: -5.06414 Start: 68 End: 91 Full_Region: TTGAGCACATCTTTT TATTGTGCAA TAAT TTGTACAATG TTTTTATTAAGGAGA ...................................................................TATTGTGCAATAATTTGTACAATG.................... Find igs database================================================ Query_seq: AA02656:AA02657|AA02656:AA02657:possible polysaccharide polymerization protein:conserved hypothetical protein:->->:1852041..1852151 111 taagtagaaatcatattcagaaagcatacatcataaaatgtgtgcttttttattgagcacatctttttattgtgcaataatttgtacaatgtttttattaaggagaataac Intra-Species Hit: Count: 1 Min: 1 Max: 111 Len: 111 Subject: aact_AA02656_AA02657|possible polysaccharide polymerization protein:conserved hypothetical protein|POSITIVE:POSITIVE|[1852041,1852151]|111 HSP 1 e-value: 7.0E-57 bit: 220.0 Len: 111 Query Start:1 Query End:111 Subject Strand: POSITIVE Subject Start: 1 Subject End: 111 taagtagaaatcatattcagaaagcatacatcataaaatgtgtgcttttttattgagcacatctttttattgtgcaataatttgtacaatgtttttattaaggagaataac taagtagaaatcatattcagaaagcatacatcataaaatgtgtgcttttttattgagcacatctttttattgtgcaataatttgtacaatgtttttattaaggagaataac Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAGUAGAAAUCAUAUUCAGAAAGCAUACAUCAUAAAAUGUGUGCUUUUUUAUUGAGCACAUCUUUUUAUUGUGCAAUAAUUUGUACAAUGUUUUUAUUAAGGAGAAUAAC ..(((((((.(((.....(((((((((((((......)))))))))))))...)))...........((((((((((....)))))))))).)))))))............ (-26.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUUAUUCUCCUUAAUAAAAACAUUGUACAAAUUAUUGCACAAUAAAAAGAUGUGCUCAAUAAAAAAGCACACAUUUUAUGAUGUAUGCUUUCUGAAUAUGAUUUCUACUUA ........................(((.(((((((.(((((.........)))))........((((((.(((((....))))).))))))......))))))).)))... (-18.90) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 212 60 24 85 52 aact:AA01393|5end_ABC_transporter,_ATP-binding_protein_940369..940599_POSITIVE 205 45 2 88 51 aact:AA02811|5end_hypothetical_protein_1979582..1979812_POSITIVE 203 79 39 186 150 aact:AA02921|5end_conserved_hypothetical_protein_(cell_filamentation_protein)_2045674..2045904_POSITIVE 202 63 21 160 118 aact:AA02668|5end_gluconate_permease_1856758..1856988_POSITIVE 202 76 37 108 67 aact:AA01169|5end_hypothetical_protein_801985..802215_POSITIVE 201 76 40 38 12 aact:AA01192|5end_conserved_hypothetical_protein_(possible_membrane_protein)_817358..817588_POSITIVE 197 99 53 92 41 aact:AA01855|5end_transcriptional_regulator,_Cro/CI_family_1247009..1247239_POSITIVE 197 45 4 43 15 aact:AA01810|5end_electron_transport_complex_protein_1219250..1219480_POSITIVE 195 77 37 170 125 aact:AA00043|5end_formate_dependent_nitrite_reductase,_transmembrane_protein_34378..34608_POSITIVE 193 60 11 222 170 aact:AA01681|5end_molybdate-binding_periplasmic_protein_1135159..1135389_POSITIVE 192 76 31 130 88 aact:AA01244|5end_transposase_847747..847977_POSITIVE 191 58 24 42 10 aact:AA02561|5end_conserved_hypothetical_protein_1783553..1783783_POSITIVE 189 109 62 143 98 aact:AA02017|5end_conserved_hypothetical_protein_1371656..1371886_POSITIVE 187 75 31 162 119 aact:AA02410|5end_cell_division_protein_1655429..1655659_POSITIVE 187 68 27 63 11 aact:AA00642|5end_conserved_hypothetical_protein_440134..440364_POSITIVE 184 80 31 156 100 aact:AA00079|5end_disulfide_bond_formation_protein_B_(disulfide_oxidoreductase)_57660..57890_POSITIVE 182 45 12 45 11 aact:AA02087|5end_1,4-alpha-glucan_branching_enzyme_1418934..1419164_POSITIVE 181 61 37 78 58 aact:AA01059|5end_orotate_phosphoribosyltransferase_735052..735282_POSITIVE 179 86 62 100 75 aact:AA01869|5end_periplasmic_serine_protease_do;_hhoA-like_precursor;_heat_shock_protein_1256650..1256880_POSITIVE 179 65 22 65 24 aact:AA00987|5end_tetracenomycin_polyketide_synthesis_O-methyltransferase_689745..689975_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 248 50 19 72 41 aact:AA02656|3end_possible_polysaccharide_polymerization_protein_1851980..1852130_POSITIVE 212 60 24 38 5 aact:AA01391|3end_glycerol-3-phosphate_acyltransferase_940402..940552_POSITIVE 202 63 21 136 94 aact:AA02667|3end_hypothetical_protein_1856814..1856964_POSITIVE 202 76 37 61 20 aact:AA01168|3end_6-phosphogluconolactonase_802018..802168_POSITIVE 201 76 40 38 12 aact:AA01191|3end_AMP-binding_enzyme_817438..817588_POSITIVE 197 99 53 92 41 aact:AA01854|3end_conserved_hypothetical_protein_1247089..1247239_POSITIVE 197 45 4 29 1 aact:AA01808|3end_electron_transport_complex_protein_1219316..1219466_POSITIVE 194 61 24 39 3 aact:AA01169|3end_hypothetical_protein_802229..802379_POSITIVE 191 58 24 39 7 aact:AA02560|3end_integral_membrane_protein_1783630..1783780_POSITIVE 189 109 62 127 82 aact:AA02015|3end_phosphoheptose_isomerase_1371720..1371870_POSITIVE 187 75 31 57 14 aact:AA02409|3end_DNA_ligase_1655404..1655554_POSITIVE 184 80 31 107 51 aact:AA00078|3end_hypothetical_protein_57691..57841_POSITIVE 182 45 12 45 11 aact:AA02086|3end_4-alpha-glucanotransferase_1419014..1419164_POSITIVE 176 97 61 111 80 aact:AA02037|3end_hypothetical_protein_1387052..1387202_POSITIVE 175 44 11 54 29 aact:AA01009|3end_universal_stress_protein_A_704945..705095_POSITIVE 174 79 31 98 48 aact:AA02961|3end_pyrroline-5-carboxylate_reductase_2071320..2071470_POSITIVE 172 63 23 58 18 aact:AA02954|3end_penicillin_tolerance_protein;_hydroxymethylbutenyl_pyrophosphate_reductase_2066631..2066781_POSITIVE 172 46 1 121 78 aact:AA02737|3end_conserved_hypothetical_protein_1919423..1919573_POSITIVE 172 87 41 49 4 aact:AA00906|3end_sigma-E_factor_regulatory_protein_626143..626293_POSITIVE 171 79 39 85 41 aact:AA01832|3end_formate_dehydrogenase_formation_protein_E_1234603..1234753_POSITIVE