Origin IGS: taagttaccttgagcaatgcccgaaagaatcacgcgatgggacgaacttgaagagtttaccatttatgaatttataagataacagccttaagaggcaggattttactgtaaagtaatggtgttagagtgataaactccgtttaattctatatcattagaagaggaaactaaa .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tttagtttcctcttctaatgatatagaattaaacggagtttatcactctaacaccattactttacagtaaaatcctgcctcttaaggctgttatcttataaattcataaatggtaaactcttcaagttcgtcccatcgcgtgattctttcgggcattgctcaaggtaactta Mask Tandem Repeat Region ================================================ taagttaccttgagcaatgcccgaaagaatcacgcgatgggacgaacttgaagagtttaccatttatgaatttataagataacagccttaagaggcaggattttactgtaaagtaatggtgttagagtgataaactccgtttaattctatatcattagaagaggaaactaaa Find is-nt database================================================ Query_seq: AA02919:AA02920|AA02919:AA02920:CagE protein (tranport-associated):hypothetical protein:->->:2045362..2045533 172 taagttaccttgagcaatgcccgaaagaatcacgcgatgggacgaacttgaagagtttaccatttatgaatttataagataacagccttaagaggcaggattttactgtaaagtaatggtgttagagtgataaactccgtttaattctatatcattagaagaggaaactaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02919:AA02920|AA02919:AA02920:CagE protein (tranport-associated):hypothetical protein:->->:2045362..2045533 172 taagttaccttgagcaatgcccgaaagaatcacgcgatgggacgaacttgaagagtttaccatttatgaatttataagataacagccttaagaggcaggattttactgtaaagtaatggtgttagagtgataaactccgtttaattctatatcattagaagaggaaactaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02919:AA02920|AA02919:AA02920:CagE protein (tranport-associated):hypothetical protein:->->:2045362..2045533 172 taagttaccttgagcaatgcccgaaagaatcacgcgatgggacgaacttgaagagtttaccatttatgaatttataagataacagccttaagaggcaggattttactgtaaagtaatggtgttagagtgataaactccgtttaattctatatcattagaagaggaaactaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taagttaccttgagcaatgcccgaaagaatcacgcgatgggacgaacttgaagagtttaccatttatgaatttataagataacagccttaagaggcaggattttactgtaaagtaatggtgttagagtgataaactccgtttaattctatatcattagaagaggaaactaaa Predict ORF larger than 30AA ================================================ taagttaccttgagcaatgcccgaaagaatcacgcgatgggacgaacttgaagagtttaccatttatgaatttataagataacagccttaagaggcaggattttactgtaaagtaatggtgttagagtgataaactccgtttaattctatatcattagaagaggaaactaaa 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================================================ taagttaccttgagcaatgcccgaaagaatcacgcgatgggacgaacttgaagagtttaccatttatgaatttataagataacagccttaagaggcaggattttactgtaaagtaatggtgttagagtgataaactccgtttaattctatatcattagaagaggaaactaaa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA02919:AA02920|AA02919:AA02920:CagE protein (tranport-associated):hypothetical protein:->->:2045362..2045533 172 taagttaccttgagcaatgcccgaaagaatcacgcgatgggacgaacttgaagagtttaccatttatgaatttataagataacagccttaagaggcaggattttactgtaaagtaatggtgttagagtgataaactccgtttaattctatatcattagaagaggaaactaaa Intra-Species Hit: Count: 1 Min: 1 Max: 172 Len: 172 Subject: aact_AA02919_AA02920|CagE protein (tranport-associated):hypothetical protein|POSITIVE:POSITIVE|[2045362,2045533]|172 HSP 1 e-value: 5.0E-93 bit: 341.0 Len: 172 Query Start:1 Query End:172 Subject Strand: POSITIVE Subject Start: 1 Subject End: 172 taagttaccttgagcaatgcccgaaagaatcacgcgatgggacgaacttgaagagtttaccatttatgaatttataagataacagccttaagaggcaggattttactgtaaagtaatggtgttagagtgataaactccgtttaattctatatcattagaagaggaaactaaa taagttaccttgagcaatgcccgaaagaatcacgcgatgggacgaacttgaagagtttaccatttatgaatttataagataacagccttaagaggcaggattttactgtaaagtaatggtgttagagtgataaactccgtttaattctatatcattagaagaggaaactaaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAGUUACCUUGAGCAAUGCCCGAAAGAAUCACGCGAUGGGACGAACUUGAAGAGUUUACCAUUUAUGAAUUUAUAAGAUAACAGCCUUAAGAGGCAGGAUUUUACUGUAAAGUAAUGGUGUUAGAGUGAUAAACUCCGUUUAAUUCUAUAUCAUUAGAAGAGGAAACUAAA ..((((.((((..(((.....(....)..(((...(((((...((((((...)))))).)))))..))).....((((((....((((....))))...)))))).)))....(((((((((.(((((..(((((...)))))))))))))))))))...)))).))))... (-35.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUAGUUUCCUCUUCUAAUGAUAUAGAAUUAAACGGAGUUUAUCACUCUAACACCAUUACUUUACAGUAAAAUCCUGCCUCUUAAGGCUGUUAUCUUAUAAAUUCAUAAAUGGUAAACUCUUCAAGUUCGUCCCAUCGCGUGAUUCUUUCGGGCAUUGCUCAAGGUAACUUA ...((((.(((..............(((((....(((((((((((...........(((((....)))))......((((....))))......................)))))))))))...)))))........((.(((.....))).))........))).)))).. (-32.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 316 54 11 87 34 aact:AA00258|5end_penicillin_binding_protein_2_180814..181044_POSITIVE 299 44 4 63 27 aact:AA00921|5end_conserved_hypothetical_protein_633332..633562_POSITIVE 294 57 12 83 20 aact:AA00939|5end_transcription_accessory_protein_(toxin_expression)_648332..648562_POSITIVE 293 68 22 151 103 aact:AA01934|5end_conserved_hypothetical_protein_1306305..1306535_POSITIVE 289 45 9 57 16 aact:AA00491|5end_haemin_storage_system_341500..341730_POSITIVE 283 44 4 52 2 aact:AA02014|5end_probable_hemolysin_1370406..1370636_POSITIVE 275 134 94 73 30 aact:AA00844|5end_cell_division_protein_I;_penicillin_binding_protein_2X_582802..583032_POSITIVE 273 35 4 139 99 aact:AA00303|5end_thymidylate_kinase_(DTMP)_206107..206337_POSITIVE 269 49 10 45 9 aact:AA02008|5end_conserved_hypothetical_protein_1366044..1366274_POSITIVE 268 44 7 139 94 aact:AA01770|5end_hypothetical_protein_1193111..1193341_POSITIVE 267 50 5 76 32 aact:AA02561|5end_conserved_hypothetical_protein_1783553..1783783_POSITIVE 265 45 17 51 24 aact:AA02108|5end_2-acylglycerophosphoethanolamine_acyltransferase;_acyl-acyl_carrier_protein_synthetase_1433393..1433623_POSITIVE 264 60 14 42 7 aact:AA00229|5end_DNA_polymerase_III,_alpha_subunit_156863..157093_POSITIVE 263 47 8 38 6 aact:AA02507|5end_penicillin-insensitive_murein_endopeptidase_A_1740058..1740288_POSITIVE 263 46 2 168 125 aact:AA01411|5end_stationary-phase_survival_protein_951000..951230_POSITIVE 262 48 4 170 134 aact:AA00179|5end_conserved_hypothetical_protein_(possible_outer_membrane_protein)_126260..126490_POSITIVE 259 50 3 231 181 aact:AA01933|5end_hypothetical_protein_1306060..1306290_POSITIVE 259 49 18 194 154 aact:AA01228|5end_50S_ribosomal_protein_L14_838897..839127_POSITIVE 258 50 10 219 169 aact:AA02899|5end_oligopeptide_ABC_transporter,_ATP-binding_protein_2030063..2030293_POSITIVE 258 45 8 74 33 aact:AA01431|5end_conserved_hypothetical_protein_(possible_hydrolase)_959856..960086_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 316 54 11 97 44 aact:AA00257|3end_rod-shape-determining_protein_180904..181054_POSITIVE 300 47 7 63 22 aact:AA00652|3end_arginyl-tRNA_synthetase_(arginine--tRNA_ligase)_447486..447636_POSITIVE 293 68 22 55 7 aact:AA01933|3end_hypothetical_protein_1306289..1306439_POSITIVE 275 134 94 52 9 aact:AA00841|3end_UDP-MurNAc-tripeptide_synthetase_582861..583011_POSITIVE 268 44 7 80 35 aact:AA01769|3end_hypothetical_protein_1193132..1193282_POSITIVE 267 50 5 73 29 aact:AA02560|3end_integral_membrane_protein_1783630..1783780_POSITIVE 265 45 17 33 6 aact:AA02106|3end_hypothetical_protein_1433455..1433605_POSITIVE 263 46 2 137 94 aact:AA01409|3end_lipoprotein_B_951049..951199_POSITIVE 262 48 4 143 107 aact:AA00177|3end_conserved_hypothetical_protein_126313..126463_POSITIVE 259 49 18 62 22 aact:AA01227|3end_hypothetical_protein_838845..838995_POSITIVE 256 44 4 142 103 aact:AA01138|3end_anaerobic_dimethyl_sulfoxide_reductase,_chain_B_781685..781835_POSITIVE 253 140 91 125 70 aact:AA01763|3end_conserved_hypothetical_protein_(possible_transcriptional_regulatory_protein)_1190818..1190968_POSITIVE 249 56 11 105 49 aact:AA00083|3end_hypothetical_protein_60851..61001_POSITIVE 248 42 3 149 101 aact:AA00863|3end_conserved_hypothetical_protein_598678..598828_POSITIVE 247 52 11 57 17 aact:AA02400|3end_hypothetical_protein_1651391..1651541_POSITIVE 246 44 11 87 53 aact:AA01875|3end_PTS_system,_glucose-specific_enzyme_II,_A_component_1263506..1263656_POSITIVE 244 130 85 137 86 aact:AA02717|3end_hypothetical_protein_1901312..1901462_POSITIVE 243 44 10 114 81 aact:AA02740|3end_conserved_hypothetical_protein_1921394..1921544_POSITIVE 242 140 91 52 2 aact:AA02514|3end_esterase/lipase_1748378..1748528_POSITIVE 242 52 14 51 5 aact:AA01151|3end_porphobilinogen_synthase_(delta-aminolevulinic_acid_dehydratase)_789422..789572_POSITIVE