Origin IGS: taatatacataaaatagattgggattgtcggcacttcggtgccgattttttttgcttaaaatgcgatctcagtcatgttttttcgtcaagtatttaagtaatattccaaaaaatagttaatatttagaaatgtaactccataaaatatttcaagataaatcataaattgcgtcgtgaagaggagagaattt .........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 aaattctctcctcttcacgacgcaatttatgatttatcttgaaatattttatggagttacatttctaaatattaactattttttggaatattacttaaatacttgacgaaaaaacatgactgagatcgcattttaagcaaaaaaaatcggcaccgaagtgccgacaatcccaatctattttatgtatatta Mask Tandem Repeat Region ================================================ taatatacataaaatagattgggattgtcggcacttcggtgccgattttttttgcttaaaatgcgatctcagtcatgttttttcgtcaagtatttaagtaatattccaaaaaatagttaatatttagaaatgtaactccataaaatatttcaagataaatcataaattgcgtcgtgaagaggagagaattt Find is-nt database================================================ Query_seq: AA01874:AA01875|AA01874:AA01875:conserved hypothetical protein:PTS system, glucose-specific enzyme II, A component:->->:1262512..1262702 191 taatatacataaaatagattgggattgtcggcacttcggtgccgattttttttgcttaaaatgcgatctcagtcatgttttttcgtcaagtatttaagtaatattccaaaaaatagttaatatttagaaatgtaactccataaaatatttcaagataaatcataaattgcgtcgtgaagaggagagaattt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA01874:AA01875|AA01874:AA01875:conserved hypothetical protein:PTS system, glucose-specific enzyme II, A component:->->:1262512..1262702 191 taatatacataaaatagattgggattgtcggcacttcggtgccgattttttttgcttaaaatgcgatctcagtcatgttttttcgtcaagtatttaagtaatattccaaaaaatagttaatatttagaaatgtaactccataaaatatttcaagataaatcataaattgcgtcgtgaagaggagagaattt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA01874:AA01875|AA01874:AA01875:conserved hypothetical protein:PTS system, glucose-specific enzyme II, A component:->->:1262512..1262702 191 taatatacataaaatagattgggattgtcggcacttcggtgccgattttttttgcttaaaatgcgatctcagtcatgttttttcgtcaagtatttaagtaatattccaaaaaatagttaatatttagaaatgtaactccataaaatatttcaagataaatcataaattgcgtcgtgaagaggagagaattt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taatatacataaaatagattgggattgtcggcacttcggtgccgattttttttgcttaaaatgcgatctcagtcatgttttttcgtcaagtatttaagtaatattccaaaaaatagttaatatttagaaatgtaactccataaaatatttcaagataaatcataaattgcgtcgtgaagaggagagaattt Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: + Start: 5 End: 94 .... M H K I D W D C R H F G A D F F C L K C D L S H V F S S S I ................................................................................................. Protein_Len: 33 Strand: + Start: 19 End: 117 .................. M G L S A L R C R F F L L K M R S Q S C F F V K Y L S N I P K N S .......................................................................... taatatacataaaatagattgggattgtcggcacttcggtgccgattttttttgcttaaaatgcgatctcagtcatgttttttcgtcaagtatttaagtaatattccaaaaaatagttaatatttagaaatgtaactccataaaatatttcaagataaatcataaattgcgtcgtgaagaggagagaattt 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================================================ taatatacataaaatagattgggattgtcggcacttcggtgccgattttttttgcttaaaatgcgatctcagtcatgttttttcgtcaagtatttaagtaatattccaaaaaatagttaatatttagaaatgtaactccataaaatatttcaagataaatcataaattgcgtcgtgaagaggagagaattt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA01874:AA01875|AA01874:AA01875:conserved hypothetical protein:PTS system, glucose-specific enzyme II, A component:->->:1262512..1262702 191 taatatacataaaatagattgggattgtcggcacttcggtgccgattttttttgcttaaaatgcgatctcagtcatgttttttcgtcaagtatttaagtaatattccaaaaaatagttaatatttagaaatgtaactccataaaatatttcaagataaatcataaattgcgtcgtgaagaggagagaattt Intra-Species Hit: Count: 1 Min: 1 Max: 191 Len: 191 Subject: aact_AA01874_AA01875|conserved hypothetical protein:PTS system, glucose-specific enzyme II, A component|POSITIVE:POSITIVE|[1262512,1262702]|191 HSP 1 e-value: 5.0E-90 bit: 331.0 Len: 191 Query Start:1 Query End:191 Subject Strand: POSITIVE Subject Start: 1 Subject End: 191 taatatacataaaatagattgggattgtcggcacttcggtgccgannnnnnnngcttaaaatgcgatctcagtcatgttttttcgtcaagtatttaagtaatattccaaaaaatagttaatatttagaaatgtaactccataaaatatttcaagataaatcataaattgcgtcgtgaagaggagagaattt taatatacataaaatagattgggattgtcggcacttcggtgccgattttttttgcttaaaatgcgatctcagtcatgttttttcgtcaagtatttaagtaatattccaaaaaatagttaatatttagaaatgtaactccataaaatatttcaagataaatcataaattgcgtcgtgaagaggagagaattt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUAUACAUAAAAUAGAUUGGGAUUGUCGGCACUUCGGUGCCGAUUUUUUUUGCUUAAAAUGCGAUCUCAGUCAUGUUUUUUCGUCAAGUAUUUAAGUAAUAUUCCAAAAAAUAGUUAAUAUUUAGAAAUGUAACUCCAUAAAAUAUUUCAAGAUAAAUCAUAAAUUGCGUCGUGAAGAGGAGAGAAUUU ................((((((((..((((((((....)))))))).....((((.......))))))))))))..((((((((.((...(((....(((((........(((((.....))))).(((((((...........)))))))..............)))))...)))..)).)))))))).. (-42.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAUUCUCUCCUCUUCACGACGCAAUUUAUGAUUUAUCUUGAAAUAUUUUAUGGAGUUACAUUUCUAAAUAUUAACUAUUUUUUGGAAUAUUACUUAAAUACUUGACGAAAAAACAUGACUGAGAUCGCAUUUUAAGCAAAAAAAAUCGGCACCGAAGUGCCGACAAUCCCAAUCUAUUUUAUGUAUAUUA ...(((.((((...........(((..((.....))..)))...........))))......(((((((............)))))))...................)))...((((((...((((.((.......))........(((((((....)))))))........))))...))))))...... (-28.15) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 354 67 26 48 4 aact:AA02509|5end_chorismate_synthase_1740952..1741182_POSITIVE 323 69 21 127 71 aact:AA01747|5end_single-stranded-DNA-specific_exonuclease_1181359..1181589_POSITIVE 321 70 21 103 36 aact:AA02946|5end_virulence_factor_protein_2059216..2059446_POSITIVE 316 68 22 210 151 aact:AA00208|5end_D-ribose_ABC_transporter,_permease_protein_/_Galactoside_transport_system_permease_protein_144097..144327_POSITIVE 307 68 21 69 23 aact:AA01757|5end_cobalt_transport_ATP-binding_protein_1187137..1187367_POSITIVE 295 80 32 209 167 aact:AA02433|5end_hypothetical_protein_1678300..1678530_POSITIVE 294 69 21 152 96 aact:AA01681|5end_molybdate-binding_periplasmic_protein_1135159..1135389_POSITIVE 288 70 22 214 158 aact:AA01182|5end_3-oxoacyl-(acyl-carrier-protein)_synthase_809210..809440_POSITIVE 287 78 33 228 176 aact:AA01741|5end_6-pyruvoyl_tetrahydrobiopterin_synthase_1177193..1177423_POSITIVE 287 65 24 167 124 aact:AA00365|5end_30S_ribosomal_protein_S19_245914..246144_POSITIVE 284 80 31 95 55 aact:AA00636|5end_MrsA_protein_(phosphoglucomutase/phosphomannomutase)_436780..437010_POSITIVE 283 44 18 219 183 aact:AA02763|5end_DNA_polymerase_III,_epsilon_subunit_1933696..1933926_POSITIVE 281 57 19 166 125 aact:AA00374|5end_short-chain_fatty_acids_transporter_251681..251911_POSITIVE 279 57 13 97 58 aact:AA01477|5end_type_I_restriction_enzyme_R_protein_992249..992479_POSITIVE 276 69 21 194 146 aact:AA01767|5end_conserved_hypothetical_protein_1192528..1192758_POSITIVE 275 42 12 133 103 aact:AA01083|5end_preprotein_translocase_SecA_subunit_748131..748361_POSITIVE 271 66 21 229 179 aact:AA02681|5end_hypothetical_protein_1865749..1865979_POSITIVE 268 46 26 231 207 aact:AA03009|5end_hypothetical_protein_2101001..2101231_POSITIVE 267 65 25 81 45 aact:AA01478|5end_hypothetical_protein_994551..994781_POSITIVE 266 44 17 38 6 aact:AA01808|5end_electron_transport_complex_protein_1217287..1217517_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 323 69 21 84 28 aact:AA01746|3end_thiol:disulfide_interchange_protein_1181396..1181546_POSITIVE 307 68 21 69 23 aact:AA01756|3end_cobalt_membrane_transport_protein_1187217..1187367_POSITIVE 303 57 21 114 76 aact:AA02727|3end_hypothetical_protein_1909925..1910075_POSITIVE 294 69 21 149 93 aact:AA01679|3end_aspartate-semialdehyde_dehydrogenase;_PTS_system_enzyme_II_A_component_1135236..1135386_POSITIVE 284 80 31 63 23 aact:AA00635|3end_dihydropteroate_synthase_436828..436978_POSITIVE 283 44 18 151 115 aact:AA02762|3end_ribonuclease_H_1933708..1933858_POSITIVE 276 44 17 114 82 aact:AA02654|3end_probable_lipopolysaccharide_biosynthesis_protein_1849247..1849397_POSITIVE 275 42 12 111 81 aact:AA01081|3end_hypothetical_protein_748189..748339_POSITIVE 274 68 21 66 12 aact:AA02281|3end_phosphoglycerate_transport_system_activator_protein_1553474..1553624_POSITIVE 270 65 22 146 93 aact:AA01155|3end_hypothetical_protein_791411..791561_POSITIVE 266 44 17 34 2 aact:AA01807|3end_electron_transport_complex_protein_1217363..1217513_POSITIVE 266 45 15 146 116 aact:AA01644|3end_ferric_transport_system_permease_protein_1114160..1114310_POSITIVE 266 59 20 78 35 aact:AA01395|3end_conserved_hypothetical_protein_943737..943887_POSITIVE 266 70 23 150 109 aact:AA00332|3end_PTS_system,_fructose-specific_IIA/FPr_component_(diphosphoryl_transfer_protein)_225617..225767_POSITIVE 264 77 32 151 112 aact:AA02432|3end_penicillin-binding_protein_1B_1678325..1678475_POSITIVE 263 54 19 147 109 aact:AA00143|3end_gluconate_permease_(GntP_family)_103796..103946_POSITIVE 256 57 17 147 108 aact:AA00515|3end_hypothetical_protein_355959..356109_POSITIVE 255 64 21 149 94 aact:AA01489|3end_ATP_synthase_F0,_subunit_c_1001527..1001677_POSITIVE 255 57 14 134 90 aact:AA00391|3end_arsenate_reductase_265248..265398_POSITIVE 254 65 27 43 9 aact:AA00451|3end_hypothetical_protein_315348..315498_POSITIVE