Origin IGS: tggattcatccttatttacacgatttaagtgagttttcgcttttgcttttgtggcgtaatctttatacttagcaatcaactatatttttaatccttttaacttaacgacaatgaaataagtgagaaattttcg .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 cgaaaatttctcacttatttcattgtcgttaagttaaaaggattaaaaatatagttgattgctaagtataaagattacgccacaaaagcaaaagcgaaaactcacttaaatcgtgtaaataaggatgaatcca Mask Tandem Repeat Region ================================================ tggattcatccttatttacacgatttaagtgagttttcgcttttgcttttgtggcgtaatctttatacttagcaatcaactatatttttaatccttttaacttaacgacaatgaaataagtgagaaattttcg Find is-nt database================================================ Query_seq: AA01303:AA01304|AA01303:AA01304:competence protein A:penicillin-binding protein 1A:->->:882943..883075 133 tggattcatccttatttacacgatttaagtgagttttcgcttttgcttttgtggcgtaatctttatacttagcaatcaactatatttttaatccttttaacttaacgacaatgaaataagtgagaaattttcg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA01303:AA01304|AA01303:AA01304:competence protein A:penicillin-binding protein 1A:->->:882943..883075 133 tggattcatccttatttacacgatttaagtgagttttcgcttttgcttttgtggcgtaatctttatacttagcaatcaactatatttttaatccttttaacttaacgacaatgaaataagtgagaaattttcg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA01303:AA01304|AA01303:AA01304:competence protein A:penicillin-binding protein 1A:->->:882943..883075 133 tggattcatccttatttacacgatttaagtgagttttcgcttttgcttttgtggcgtaatctttatacttagcaatcaactatatttttaatccttttaacttaacgacaatgaaataagtgagaaattttcg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tggattcatccttatttacacgatttaagtgagttttcgcttttgcttttgtggcgtaatctttatacttagcaatcaactatatttttaatccttttaacttaacgacaatgaaataagtgagaaattttcg Predict ORF larger than 30AA ================================================ tggattcatccttatttacacgatttaagtgagttttcgcttttgcttttgtggcgtaatctttatacttagcaatcaactatatttttaatccttttaacttaacgacaatgaaataagtgagaaattttcg Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ tggattcatccttatttacacgatttaagtgagttttcgcttttgcttttgtggcgtaatctttatacttagcaatcaactatatttttaatccttttaacttaacgacaatgaaataagtgagaaattttcg Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA01303:AA01304|AA01303:AA01304:competence protein A:penicillin-binding protein 1A:->->:882943..883075 133 tggattcatccttatttacacgatttaagtgagttttcgcttttgcttttgtggcgtaatctttatacttagcaatcaactatatttttaatccttttaacttaacgacaatgaaataagtgagaaattttcg Intra-Species Hit: Count: 1 Min: 1 Max: 133 Len: 133 Subject: aact_AA01303_AA01304|competence protein A:penicillin-binding protein 1A|POSITIVE:POSITIVE|[882943,883075]|133 HSP 1 e-value: 7.0E-70 bit: 264.0 Len: 133 Query Start:1 Query End:133 Subject Strand: POSITIVE Subject Start: 1 Subject End: 133 tggattcatccttatttacacgatttaagtgagttttcgcttttgcttttgtggcgtaatctttatacttagcaatcaactatatttttaatccttttaacttaacgacaatgaaataagtgagaaattttcg tggattcatccttatttacacgatttaagtgagttttcgcttttgcttttgtggcgtaatctttatacttagcaatcaactatatttttaatccttttaacttaacgacaatgaaataagtgagaaattttcg Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGGAUUCAUCCUUAUUUACACGAUUUAAGUGAGUUUUCGCUUUUGCUUUUGUGGCGUAAUCUUUAUACUUAGCAAUCAACUAUAUUUUUAAUCCUUUUAACUUAACGACAAUGAAAUAAGUGAGAAAUUUUCG .(((((..(((((((((.((.((((((((((((....((((...((....))))))....)))...)))))..))))..........((((.....))))...........))))))))).))..)))))... (-16.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CGAAAAUUUCUCACUUAUUUCAUUGUCGUUAAGUUAAAAGGAUUAAAAAUAUAGUUGAUUGCUAAGUAUAAAGAUUACGCCACAAAAGCAAAAGCGAAAACUCACUUAAAUCGUGUAAAUAAGGAUGAAUCCA .......(((((.((((((((((.(...((((((.....((..........((((.....)))).(((.......))).))......((....))........))))))..)))).))))))))).))).... (-17.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 281 64 21 215 173 aact:AA01351|5end_probable_sulfatase_914343..914573_POSITIVE 264 45 3 186 137 aact:AA01872|5end_conserved_hypothetical_protein_1258804..1259034_POSITIVE 250 58 18 185 149 aact:AA01116|5end_hypothetical_protein_767629..767859_POSITIVE 245 56 21 35 2 aact:AA01642|5end_possible_iron(III)_ABC_transporter_1110970..1111200_POSITIVE 241 73 38 61 22 aact:AA01790|5end_riboflavin_bifunctional_biosynthesis_protein_1206934..1207164_POSITIVE 234 64 33 70 36 aact:AA01822|5end_lysostaphin_precursor_1226062..1226292_POSITIVE 234 60 22 202 153 aact:AA00758|5end_hypothetical_protein_520485..520715_POSITIVE 232 56 17 148 106 aact:AA00113|5end_uracil_phosphoribosyltransferase_81286..81516_POSITIVE 231 69 38 174 134 aact:AA01274|5end_hypothetical_protein_864519..864749_POSITIVE 230 79 39 160 118 aact:AA01155|5end_hypothetical_protein_791227..791457_POSITIVE 230 56 19 196 147 aact:AA00179|5end_conserved_hypothetical_protein_(possible_outer_membrane_protein)_126260..126490_POSITIVE 229 40 1 219 180 aact:AA02297|5end_conserved_hypothetical_protein_1569620..1569850_POSITIVE 229 57 14 91 47 aact:AA01325|5end_formamidopyrimidine-DNA_glycosylase_894747..894977_POSITIVE 229 40 1 219 180 aact:AA00621|5end_conserved_hypothetical_protein_428727..428957_POSITIVE 229 40 1 219 180 aact:AA00412|5end_conserved_hypothetical_protein_279174..279404_POSITIVE 228 59 27 139 103 aact:AA02279|5end_conserved_hypothetical_protein_1551048..1551278_POSITIVE 227 61 21 97 49 aact:AA01070|5end_DNA_repair_protein_740920..741150_POSITIVE 227 53 20 74 40 aact:AA00030|5end_hypothetical_protein_24879..25109_POSITIVE 226 62 21 228 180 aact:AA02246|5end_peptidase_E_1527574..1527804_POSITIVE 226 62 21 100 52 aact:AA02245|5end_hypothetical_protein_1527446..1527676_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 281 64 21 147 105 aact:AA01349|3end_NAD(P)H_nitroreductase/H-flavin_oxidoreductase_914355..914505_POSITIVE 252 56 12 129 88 aact:AA00168|3end_possible_sigma_54_modulation_protein_120240..120390_POSITIVE 241 73 38 49 10 aact:AA01789|3end_protease_DegS_precursor;_periplasmic_serine_endoprotease_1207002..1207152_POSITIVE 236 63 21 113 64 aact:AA02794|3end_myo-inositol_catabolism_protein_1962949..1963099_POSITIVE 230 59 19 146 107 aact:AA01273|3end_hypothetical_protein_864588..864738_POSITIVE 228 59 27 44 8 aact:AA02278|3end_conserved_hypothetical_protein_1551033..1551183_POSITIVE 227 54 14 94 50 aact:AA00943|3end_conserved_hypothetical_protein_654542..654692_POSITIVE 227 53 20 58 24 aact:AA00029|3end_type_III_restriction-modification_system:_methylase_24943..25093_POSITIVE 223 56 20 81 37 aact:AA01573|3end_peptide_transport_periplasmic_protein_1061454..1061604_POSITIVE 223 59 20 68 35 aact:AA00686|3end_hypothetical_protein_469219..469369_POSITIVE 220 50 2 70 14 aact:AA01762|3end_hypothetical_protein_1190591..1190741_POSITIVE 218 61 39 126 106 aact:AA02605|3end_hypothetical_protein_1816760..1816910_POSITIVE 218 57 23 136 99 aact:AA02105|3end_killing_protein_1433290..1433440_POSITIVE 216 65 30 116 83 aact:AA02931|3end_UDP-N-acetylmuramate:L-alanyl-gamma-d-glutamayl-m_edo-diaminopimelate_2052046..2052196_POSITIVE 216 68 28 64 15 aact:AA00989|3end_hypothetical_protein_692644..692794_POSITIVE 214 57 11 127 87 aact:AA02692|3end_hydrogenase_4_subunit;_hydrogenase_3_subunit_1877984..1878134_POSITIVE 214 58 18 41 12 aact:AA02659|3end_conserved_hypothetical_protein_1853347..1853497_POSITIVE 214 56 20 150 116 aact:AA02173|3end_anthranilate_synthase_component_I_1488365..1488515_POSITIVE 214 66 29 144 116 aact:AA00935|3end_ribose_ABC_transporter,_permease_protein,_N-terminal_646328..646478_POSITIVE 214 55 30 141 104 aact:AA00804|3end_fumarate_reductase_flavoprotein_subunit_A_551655..551805_POSITIVE