Origin IGS: ccatgcgaagattgagttaatcctgcctttgttgtaaactatgctcccgtcttgatagattatatttatcctaatttttccatccatcccaatagcaacaatataggtttcttatggctaccaattatattttcgtcacaggcggc .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 gccgcctgtgacgaaaatataattggtagccataagaaacctatattgttgctattgggatggatggaaaaattaggataaatataatctatcaagacgggagcatagtttacaacaaaggcaggattaactcaatcttcgcatgg Mask Tandem Repeat Region ================================================ ccatgcgaagattgagttaatcctgcctttgttgtaaactatgctcccgtcttgatagattatatttatcctaatttttccatccatcccaatagcaacaatataggtttcttatggctaccaattatattttcgtcacaggcggc Find is-nt database================================================ Query_seq: AA01223:AA01224|AA01223:AA01224:branched-chain amino acid carrier protein:CTP synthase:->->:836215..836360 146 ccatgcgaagattgagttaatcctgcctttgttgtaaactatgctcccgtcttgatagattatatttatcctaatttttccatccatcccaatagcaacaatataggtttcttatggctaccaattatattttcgtcacaggcggc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA01223:AA01224|AA01223:AA01224:branched-chain amino acid carrier protein:CTP synthase:->->:836215..836360 146 ccatgcgaagattgagttaatcctgcctttgttgtaaactatgctcccgtcttgatagattatatttatcctaatttttccatccatcccaatagcaacaatataggtttcttatggctaccaattatattttcgtcacaggcggc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA01223:AA01224|AA01223:AA01224:branched-chain amino acid carrier protein:CTP synthase:->->:836215..836360 146 ccatgcgaagattgagttaatcctgcctttgttgtaaactatgctcccgtcttgatagattatatttatcctaatttttccatccatcccaatagcaacaatataggtttcttatggctaccaattatattttcgtcacaggcggc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ccatgcgaagattgagttaatcctgcctttgttgtaaactatgctcccgtcttgatagattatatttatcctaatttttccatccatcccaatagcaacaatataggtttcttatggctaccaattatattttcgtcacaggcggc Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: + Start: 52 End: 144 ................................................... M I D Y I Y P N F S I H P N S N N I G F L W L P I I F S S Q A .. Protein_Len: 34 Strand: - Start: 1 End: 102 W A F I S N I R G K N Y V I S G D Q Y I I N I R I K G D M G I A V M ............................................ ccatgcgaagattgagttaatcctgcctttgttgtaaactatgctcccgtcttgatagattatatttatcctaatttttccatccatcccaatagcaacaatataggtttcttatggctaccaattatattttcgtcacaggcggc 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: 11 End: 40 ..........ATTGAGTTAATCCTGCCTTTGTTGTAAACT.......................................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ ccatgcgaagattgagttaatcctgcctttgttgtaaactatgctcccgtcttgatagattatatttatcctaatttttccatccatcccaatagcaacaatataggtttcttatggctaccaattatattttcgtcacaggcggc Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA01223:AA01224|AA01223:AA01224:branched-chain amino acid carrier protein:CTP synthase:->->:836215..836360 146 ccatgcgaagattgagttaatcctgcctttgttgtaaactatgctcccgtcttgatagattatatttatcctaatttttccatccatcccaatagcaacaatataggtttcttatggctaccaattatattttcgtcacaggcggc Intra-Species Hit: Count: 1 Min: 1 Max: 146 Len: 146 Subject: aact_AA01223_AA01224|branched-chain amino acid carrier protein:CTP synthase|POSITIVE:POSITIVE|[836215,836360]|146 HSP 1 e-value: 1.0E-77 bit: 289.0 Len: 146 Query Start:1 Query End:146 Subject Strand: POSITIVE Subject Start: 1 Subject End: 146 ccatgcgaagattgagttaatcctgcctttgttgtaaactatgctcccgtcttgatagattatatttatcctaatttttccatccatcccaatagcaacaatataggtttcttatggctaccaattatattttcgtcacaggcggc ccatgcgaagattgagttaatcctgcctttgttgtaaactatgctcccgtcttgatagattatatttatcctaatttttccatccatcccaatagcaacaatataggtttcttatggctaccaattatattttcgtcacaggcggc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CCAUGCGAAGAUUGAGUUAAUCCUGCCUUUGUUGUAAACUAUGCUCCCGUCUUGAUAGAUUAUAUUUAUCCUAAUUUUUCCAUCCAUCCCAAUAGCAACAAUAUAGGUUUCUUAUGGCUACCAAUUAUAUUUUCGUCACAGGCGGC ((.(((((((((..(((((.....((((.((((((...((((...........((.((((((.........)))))).))...........))))..)))))).))))......))))).........))))))).))..)).... (-20.85) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GCCGCCUGUGACGAAAAUAUAAUUGGUAGCCAUAAGAAACCUAUAUUGUUGCUAUUGGGAUGGAUGGAAAAAUUAGGAUAAAUAUAAUCUAUCAAGACGGGAGCAUAGUUUACAACAAAGGCAGGAUUAACUCAAUCUUCGCAUGG ((..(((((.............(..(((((.((((..........)))).)))))..)(((((((.....................)))))))...))))).))................((((((((.....)))))).)).... (-27.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 291 50 3 222 166 aact:AA00552|5end_periplasmic_nitrate_reductase_precursor_377331..377561_POSITIVE 291 50 3 116 60 aact:AA00551|5end_hypothetical_protein_377225..377455_POSITIVE 291 124 81 104 49 aact:AA00309|5end_3-hydroxyisobutyrate_dehydrogenase;_2-hydroxy-3-oxopropionate_reductase_209285..209515_POSITIVE 281 119 80 198 148 aact:AA01600|5end_phosphotransferase_system_enzyme_I_1080481..1080711_POSITIVE 277 124 83 205 172 aact:AA02702|5end_succinyl-CoA_synthetase,_beta_chain_1884139..1884369_POSITIVE 277 60 16 100 67 aact:AA00428|5end_hypothetical_protein_289856..290086_POSITIVE 266 50 1 228 183 aact:AA02405|5end_conserved_hypothetical_protein_1652430..1652660_POSITIVE 266 50 1 176 131 aact:AA02404|5end_hypothetical_protein_1652378..1652608_POSITIVE 261 49 2 68 8 aact:AA00684|5end_adenylosuccinate_synthase_467486..467716_POSITIVE 261 50 1 55 16 aact:AA00675|5end_glutaredoxin_2_462524..462754_POSITIVE 256 50 1 91 34 aact:AA01724|5end_valyl-tRNA_synthetase_1164446..1164676_POSITIVE 253 65 22 140 98 aact:AA01710|5end_ribosomal_protein_S6_modification_protein_1159348..1159578_POSITIVE 251 86 41 75 26 aact:AA01767|5end_conserved_hypothetical_protein_1192528..1192758_POSITIVE 251 48 4 195 154 aact:AA01530|5end_conserved_hypothetical_protein_1027308..1027538_POSITIVE 249 85 42 54 3 aact:AA01757|5end_cobalt_transport_ATP-binding_protein_1187137..1187367_POSITIVE 248 54 22 181 148 aact:AA02731|5end_outer_membrane_lipoprotein_carrier_precursor_1911498..1911728_POSITIVE 248 70 24 79 31 aact:AA02062|5end_conserved_hypothetical_protein_(probable_membrane_protein)_1403427..1403657_POSITIVE 246 50 3 155 107 aact:AA01732|5end_multidrug_resistance_protein_A_1170677..1170907_POSITIVE 244 89 43 160 114 aact:AA01534|5end_conserved_hypothetical_protein_(possible_GTP_pyrophosphokinase)_1029377..1029607_POSITIVE 243 43 1 65 14 aact:AA01355|5end_large_subunit_pseudouridylate_synthase_D_917228..917458_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 281 119 80 81 31 aact:AA01599|3end_phosphocarrier_protein_HPr_1080444..1080594_POSITIVE 277 60 16 120 87 aact:AA00427|3end_hypothetical_protein_289956..290106_POSITIVE 256 44 1 151 102 aact:AA01477|3end_type_I_restriction_enzyme_R_protein_994479..994629_POSITIVE 253 65 22 46 4 aact:AA01709|3end_glutathione-S-transferase-nitroreductase_A_fusion_protein;_modulator_of_drug_activity_A_1159334..1159484_POSITIVE 251 86 41 103 54 aact:AA01765|3end_Mu-like_prophage_FluMu_transposase_A_1192636..1192786_POSITIVE 251 48 4 67 26 aact:AA01528|3end_probable_oxidoreductase_1027260..1027410_POSITIVE 251 50 6 36 2 aact:AA00674|3end_nicotinate-nucleotide-dimethylbenzimidazole_phosphoribosyltransferase_462585..462735_POSITIVE 249 85 42 54 3 aact:AA01756|3end_cobalt_membrane_transport_protein_1187217..1187367_POSITIVE 248 70 24 62 14 aact:AA02060|3end_cardiolipin_synthase_1403490..1403640_POSITIVE 246 50 3 73 25 aact:AA01731|3end_multidrug_resistance_protein_B_1170675..1170825_POSITIVE 243 43 1 78 27 aact:AA01354|3end_conserved_hypothetical_protein_917321..917471_POSITIVE 238 56 12 118 81 aact:AA01974|3end_conserved_hypothetical_protein_1336411..1336561_POSITIVE 236 55 22 51 14 aact:AA02195|3end_oxaloacetate_decarboxylase_alpha_chain_1496374..1496524_POSITIVE 235 50 1 92 42 aact:AA02545|3end_conserved_hypothetical_protein_1774221..1774371_POSITIVE 234 62 25 132 97 aact:AA00894|3end_selenium_transferase_(Cysteinyl-tRNA(Sec)_selenium_transferase)_621350..621500_POSITIVE 232 50 1 122 75 aact:AA01705|3end_beta-galactosidase_1157980..1158130_POSITIVE 228 58 19 45 6 aact:AA01800|3end_hypothetical_protein_1213458..1213608_POSITIVE 227 87 43 151 108 aact:AA01533|3end_conserved_hypothetical_protein_1029451..1029601_POSITIVE 226 50 2 61 11 aact:AA00373|3end_CoA-transferase_(beta)_251755..251905_POSITIVE 225 51 25 24 1 aact:AA00613|3end_lipid-A-disaccharide_synthase_419974..420124_POSITIVE