Origin IGS: aagtctattctcaaaacattggattttgtgaccgcactttttcctttaaagtgtggtcattttttgatgcgttttttaactaaaataaaaggcaccgatacgtgccttttcgataggagtgattcaacta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tagttgaatcactcctatcgaaaaggcacgtatcggtgccttttattttagttaaaaaacgcatcaaaaaatgaccacactttaaaggaaaaagtgcggtcacaaaatccaatgttttgagaatagactt Mask Tandem Repeat Region ================================================ aagtctattctcaaaacattggattttgtgaccgcactttttcctttaaagtgtggtcattttttgatgcgttttttaactaaaataaaaggcaccgatacgtgccttttcgataggagtgattcaacta Find is-nt database================================================ Query_seq: AA03010:AA03011|AA03010:AA03011:thiophene and furan oxidation protein:inner membrane protein, 60 kDa:->->:2102595..2102724 130 aagtctattctcaaaacattggattttgtgaccgcactttttcctttaaagtgtggtcattttttgatgcgttttttaactaaaataaaaggcaccgatacgtgccttttcgataggagtgattcaacta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA03010:AA03011|AA03010:AA03011:thiophene and furan oxidation protein:inner membrane protein, 60 kDa:->->:2102595..2102724 130 aagtctattctcaaaacattggattttgtgaccgcactttttcctttaaagtgtggtcattttttgatgcgttttttaactaaaataaaaggcaccgatacgtgccttttcgataggagtgattcaacta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA03010:AA03011|AA03010:AA03011:thiophene and furan oxidation protein:inner membrane protein, 60 kDa:->->:2102595..2102724 130 aagtctattctcaaaacattggattttgtgaccgcactttttcctttaaagtgtggtcattttttgatgcgttttttaactaaaataaaaggcaccgatacgtgccttttcgataggagtgattcaacta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aagtctattctcaaaacattggattttgtgaccgcactttttcctttaaagtgtggtcattttttgatgcgttttttaactaaaataaaaggcaccgatacgtgccttttcgataggagtgattcaacta Predict ORF larger than 30AA ================================================ Protein_Len: 41 Strand: + Start: 7 End: 129 ...... M L K T L D F V T A L F P L K C G H F L M R F L T K I K G T D T C L F D R S D S T . aagtctattctcaaaacattggattttgtgaccgcactttttcctttaaagtgtggtcattttttgatgcgttttttaactaaaataaaaggcaccgatacgtgccttttcgataggagtgattcaacta 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================================================ aagtctattctcaaaacattggattttgtgaccgcactttttcctttaaagtgtggtcattttttgatgcgttttttaactaaaataaaaggcaccgatacgtgccttttcgataggagtgattcaacta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA03010:AA03011|AA03010:AA03011:thiophene and furan oxidation protein:inner membrane protein, 60 kDa:->->:2102595..2102724 130 aagtctattctcaaaacattggattttgtgaccgcactttttcctttaaagtgtggtcattttttgatgcgttttttaactaaaataaaaggcaccgatacgtgccttttcgataggagtgattcaacta Intra-Species Hit: Count: 1 Min: 1 Max: 130 Len: 130 Subject: aact_AA03010_AA03011|thiophene and furan oxidation protein:inner membrane protein, 60 kDa|POSITIVE:POSITIVE|[2102595,2102724]|130 HSP 1 e-value: 4.0E-68 bit: 258.0 Len: 130 Query Start:1 Query End:130 Subject Strand: POSITIVE Subject Start: 1 Subject End: 130 aagtctattctcaaaacattggattttgtgaccgcactttttcctttaaagtgtggtcattttttgatgcgttttttaactaaaataaaaggcaccgatacgtgccttttcgataggagtgattcaacta aagtctattctcaaaacattggattttgtgaccgcactttttcctttaaagtgtggtcattttttgatgcgttttttaactaaaataaaaggcaccgatacgtgccttttcgataggagtgattcaacta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAGUCUAUUCUCAAAACAUUGGAUUUUGUGACCGCACUUUUUCCUUUAAAGUGUGGUCAUUUUUUGAUGCGUUUUUUAACUAAAAUAAAAGGCACCGAUACGUGCCUUUUCGAUAGGAGUGAUUCAACUA .((((.(((((.....(((..((....(((((((((((((.......)))))))))))))..))..))).................(((((((((......))))))))).....)))))))))...... (-39.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGUUGAAUCACUCCUAUCGAAAAGGCACGUAUCGGUGCCUUUUAUUUUAGUUAAAAAACGCAUCAAAAAAUGACCACACUUUAAAGGAAAAAGUGCGGUCACAAAAUCCAAUGUUUUGAGAAUAGACUU .((((...((....(((...(((((((((......)))))))))....)))....((((((..........(((((.((((((.......)))))).)))))..........))))))..))...)))). (-32.15) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 468 79 31 176 123 aact:AA00075|5end_conserved_hypothetical_protein_54963..55193_POSITIVE 434 76 31 155 111 aact:AA02836|5end_colicin_transport_protein_1991777..1992007_POSITIVE 434 76 31 79 35 aact:AA02835|5end_hypothetical_protein_1991701..1991931_POSITIVE 429 77 31 171 117 aact:AA01436|5end_fructose-bisphosphate_aldolase_class_II_962981..963211_POSITIVE 410 58 13 152 107 aact:AA02963|5end_opacity_associated_protein_B_2072302..2072532_POSITIVE 410 41 2 133 93 aact:AA01554|5end_conserved_hypothetical_protein;_hypothetical_membrane_protein_1042061..1042291_POSITIVE 406 70 29 165 118 aact:AA00254|5end_penicillin-binding_protein_5_177579..177809_POSITIVE 396 76 31 160 113 aact:AA00686|5end_hypothetical_protein_468852..469082_POSITIVE 391 80 31 173 118 aact:AA02381|5end_4-hydroxy-2-oxoglutarate_aldolase_1629192..1629422_POSITIVE 383 76 31 183 140 aact:AA00501|5end_hypothetical_protein_347293..347523_POSITIVE 381 75 31 169 120 aact:AA00511|5end_nicotinamide_mononucleotide_transporter_353884..354114_POSITIVE 379 57 11 57 7 aact:AA01501|5end_hypothetical_protein_1009832..1010062_POSITIVE 379 80 31 184 129 aact:AA01020|5end_enonolase;_2-phosphoglycerate_dehydratase_712741..712971_POSITIVE 370 78 31 166 113 aact:AA01603|5end_oligopeptidase_A_1082898..1083128_POSITIVE 359 57 13 56 12 aact:AA01041|5end_hypothetical_protein_724853..725083_POSITIVE 354 71 31 165 124 aact:AA00454|5end_conserved_hypothetical_protein_318020..318250_POSITIVE 353 59 13 155 108 aact:AA02999|5end_conserved_hypothetical_protein_2094275..2094505_POSITIVE 351 76 31 166 114 aact:AA02252|5end_conserved_hypothetical_protein_1533840..1534070_POSITIVE 350 75 33 184 144 aact:AA01991|5end_conserved_hypothetical_protein_(possible_nitroreductase)_1352372..1352602_POSITIVE 349 58 17 160 118 aact:AA01519|5end_conserved_hypothetical_protein_1021794..1022024_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 468 79 31 80 27 aact:AA00072|3end_conserved_hypothetical_protein_54947..55097_POSITIVE 434 76 31 66 22 aact:AA02834|3end_colicin_transport_protein_1991768..1991918_POSITIVE 429 77 31 131 77 aact:AA01434|3end_conserved_hypothetical_protein_(possible_o-antigen_ligase)_963021..963171_POSITIVE 410 58 13 55 10 aact:AA02962|3end_recombination_associated_protein_2072285..2072435_POSITIVE 406 70 29 142 95 aact:AA00253|3end_hypothetical_protein_177636..177786_POSITIVE 401 48 2 95 46 aact:AA02913|3end_ribosomal_large_subunit_pseudouridine_synthase_2040527..2040677_POSITIVE 396 76 31 89 42 aact:AA00684|3end_adenylosuccinate_synthase_468861..469011_POSITIVE 391 80 31 81 26 aact:AA02380|3end_iron_chelatin_ABC_transporter,periplasmic-binding_protein_1629180..1629330_POSITIVE 383 76 31 89 46 aact:AA00499|3end_pyridoxamine-5'-phosphate_oxidase_347279..347429_POSITIVE 381 75 31 88 39 aact:AA00508|3end_SAM-dependent_methyltransferase_353883..354033_POSITIVE 379 80 31 82 27 aact:AA01019|3end_conserved_hypothetical_protein_712719..712869_POSITIVE 364 78 31 90 49 aact:AA00168|3end_possible_sigma_54_modulation_protein_120240..120390_POSITIVE 359 57 13 69 25 aact:AA01040|3end_possible_lipoprotein_724946..725096_POSITIVE 354 71 31 74 33 aact:AA00453|3end_phosphoglyceromutase_318009..318159_POSITIVE 353 59 13 150 103 aact:AA02998|3end_conserved_hypothetical_protein_2094350..2094500_POSITIVE 351 76 31 89 37 aact:AA02251|3end_biotin_sulfoxide_reductase;_Trimethylamine-N-oxide_reductase_precursor_1533843..1533993_POSITIVE 349 58 17 77 35 aact:AA01517|3end_peptidyl-prolyl_cis-trans_isomerase;_macrophage_infectivity_protein_1021791..1021941_POSITIVE 348 65 31 68 23 aact:AA02409|3end_DNA_ligase_1655404..1655554_POSITIVE 347 77 31 82 30 aact:AA00974|3end_glucosamine-fructose-6-phosphate_681127..681277_POSITIVE 344 79 45 140 106 aact:AA02032|3end_hypothetical_protein_1385294..1385444_POSITIVE