Origin IGS: tgatacggggggctaccgtatttttccacgaagagttttttaagaggcgatcttaagtccgattcaaatagaagacggtgtgttgaaacgaaacgtttggcacaccgtcttaatgttta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taaacattaagacggtgtgccaaacgtttcgtttcaacacaccgtcttctatttgaatcggacttaagatcgcctcttaaaaaactcttcgtggaaaaatacggtagccccccgtatca Mask Tandem Repeat Region ================================================ tgatacggggggctaccgtatttttccacgaagagttttttaagaggcgatcttaagtccgattcaaatagaagacggtgtgttgaaacgaaacgtttggcacaccgtcttaatgttta Find is-nt database================================================ Query_seq: TF2892:TF2893|TF2892:TF2893:seryl-tRNA synthetase:conserved hypothetical protein; possible phosphoesterase:->->:3080787..3080905 119 tgatacggggggctaccgtatttttccacgaagagttttttaagaggcgatcttaagtccgattcaaatagaagacggtgtgttgaaacgaaacgtttggcacaccgtcttaatgttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF2892:TF2893|TF2892:TF2893:seryl-tRNA synthetase:conserved hypothetical protein; possible phosphoesterase:->->:3080787..3080905 119 tgatacggggggctaccgtatttttccacgaagagttttttaagaggcgatcttaagtccgattcaaatagaagacggtgtgttgaaacgaaacgtttggcacaccgtcttaatgttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF2892:TF2893|TF2892:TF2893:seryl-tRNA synthetase:conserved hypothetical protein; possible phosphoesterase:->->:3080787..3080905 119 tgatacggggggctaccgtatttttccacgaagagttttttaagaggcgatcttaagtccgattcaaatagaagacggtgtgttgaaacgaaacgtttggcacaccgtcttaatgttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgatacggggggctaccgtatttttccacgaagagttttttaagaggcgatcttaagtccgattcaaatagaagacggtgtgttgaaacgaaacgtttggcacaccgtcttaatgttta Predict ORF larger than 30AA ================================================ tgatacggggggctaccgtatttttccacgaagagttttttaagaggcgatcttaagtccgattcaaatagaagacggtgtgttgaaacgaaacgtttggcacaccgtcttaatgttta 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================================================ tgatacggggggctaccgtatttttccacgaagagttttttaagaggcgatcttaagtccgattcaaatagaagacggtgtgttgaaacgaaacgtttggcacaccgtcttaatgttta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF2892:TF2893|TF2892:TF2893:seryl-tRNA synthetase:conserved hypothetical protein; possible phosphoesterase:->->:3080787..3080905 119 tgatacggggggctaccgtatttttccacgaagagttttttaagaggcgatcttaagtccgattcaaatagaagacggtgtgttgaaacgaaacgtttggcacaccgtcttaatgttta Intra-Species Hit: Count: 1 Min: 1 Max: 119 Len: 119 Subject: tfor_TF2892_TF2893|seryl-tRNA synthetase:conserved hypothetical protein; possible phosphoesterase|POSITIVE:POSITIVE|[3080787,3080905]|119 HSP 1 e-value: 1.0E-61 bit: 236.0 Len: 119 Query Start:1 Query End:119 Subject Strand: POSITIVE Subject Start: 1 Subject End: 119 tgatacggggggctaccgtatttttccacgaagagttttttaagaggcgatcttaagtccgattcaaatagaagacggtgtgttgaaacgaaacgtttggcacaccgtcttaatgttta tgatacggggggctaccgtatttttccacgaagagttttttaagaggcgatcttaagtccgattcaaatagaagacggtgtgttgaaacgaaacgtttggcacaccgtcttaatgttta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAUACGGGGGGCUACCGUAUUUUUCCACGAAGAGUUUUUUAAGAGGCGAUCUUAAGUCCGAUUCAAAUAGAAGACGGUGUGUUGAAACGAAACGUUUGGCACACCGUCUUAAUGUUUA .(((((((.......)))))))..........(((((.(((((((.....)))))))...)))))......((((((((((((..((.((...))))..))))))))))))........ (-39.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAACAUUAAGACGGUGUGCCAAACGUUUCGUUUCAACACACCGUCUUCUAUUUGAAUCGGACUUAAGAUCGCCUCUUAAAAAACUCUUCGUGGAAAAAUACGGUAGCCCCCCGUAUCA ........(((((((((((..(((((...)))))...))))))))))).....(((..(((..((((((.....))))))........(((((......))))).......)))..))) (-29.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 427 110 61 162 108 tfor:TF0811|5end_conserved_hypothetical_protein;_posible_sugar_phosphate_isomerase_869787..870017_POSITIVE 349 49 6 90 44 tfor:TF1836|5end_hypothetical_protein_1984534..1984764_POSITIVE 338 110 70 169 124 tfor:TF2536|5end_subtilisin-like_serine_protease_2719286..2719516_POSITIVE 329 110 70 161 120 tfor:TF0476|5end_conserved_hypothetical_protein_494944..495174_POSITIVE 326 110 68 147 99 tfor:TF0107|5end_ion_channel_protein_113913..114143_POSITIVE 319 106 64 159 116 tfor:TF0702|5end_possible_peptidyl-prolyl_isomerase_744977..745207_POSITIVE 319 108 72 210 164 tfor:TF0603|5end_glycosyltransferase_633811..634041_POSITIVE 317 99 56 178 138 tfor:TF2853|5end_2-C-methyl-D-erythritol_2,4-cyclodiphosphate_synthase_3040172..3040402_POSITIVE 310 49 5 198 150 tfor:TF3077|5end_tonB-dependent_receptor_HmuY_3305033..3305263_POSITIVE 303 106 65 151 107 tfor:TF1024|5end_50S_ribosomal_protein_L19_1081948..1082178_POSITIVE 290 90 43 221 164 tfor:TF1825|5end_mannose-6-phosphate_isomerase_1973578..1973808_POSITIVE 288 101 71 89 59 tfor:TF0612|5end_conserved_hypothetical_protein_644066..644296_POSITIVE 287 109 76 211 168 tfor:TF2392|5end_alpha-galactosidase_2563384..2563614_POSITIVE 284 109 71 64 10 tfor:TF2017|5end_conserved_hypothetical_protein_2173504..2173734_POSITIVE 283 48 1 218 175 tfor:TF2427|5end_arylsulfatase_regulator_(Fe-S_oxidoreductase)_2606729..2606959_POSITIVE 282 90 43 59 20 tfor:TF2161|5end_conserved_hypothetical_protein_2336972..2337202_POSITIVE 282 106 77 36 3 tfor:TF1454|5end_sugar_phosphate_epimerase/isomerase_1539696..1539926_POSITIVE 282 47 1 81 25 tfor:TF0320|5end_dihydroorotase_346062..346292_POSITIVE 281 107 68 154 105 tfor:TF1898|5end_RNA_polymerase_ECF-type_sigma_factor_2052115..2052345_POSITIVE 278 110 62 226 176 tfor:TF0184|5end_dihydroneopterin_aldolase_195629..195859_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 349 49 6 62 16 tfor:TF1835|3end_possible_dihydroxy-acid_dehydratase_1984586..1984736_POSITIVE 326 110 68 61 13 tfor:TF0105|3end_DNA-binding_stress_protein,_Dps_family_113907..114057_POSITIVE 317 99 56 147 107 tfor:TF2852|3end_conserved_hypothetical_protein_3040221..3040371_POSITIVE 310 110 77 60 26 tfor:TF1354|3end_TonB_protein_1435216..1435366_POSITIVE 303 110 73 111 75 tfor:TF2413|3end_hypothetical_protein_2590680..2590830_POSITIVE 290 90 43 73 16 tfor:TF1824|3end_ABC_transporter,_ATP-binding_protein_1973510..1973660_POSITIVE 287 110 69 48 8 tfor:TF2765|3end_subtilisin-like_serine_protease_2951460..2951610_POSITIVE 282 90 43 56 17 tfor:TF2160|3end_magnesium_chelatase,_subunit_I_2337049..2337199_POSITIVE 281 107 68 66 17 tfor:TF1897|3end_conserved_hypothetical_protein;_possible_aminopeptidase_2052107..2052257_POSITIVE 278 107 62 117 72 tfor:TF2913|3end_conserved_hypothetical_protein_3109117..3109267_POSITIVE 276 49 6 86 28 tfor:TF1653|3end_hypothetical_protein_1766481..1766631_POSITIVE 276 49 6 86 28 tfor:TF0979|3end_hypothetical_protein_1033118..1033268_POSITIVE 275 109 71 38 1 tfor:TF2975|3end_endonuclease_IV_3183304..3183454_POSITIVE 275 50 11 102 63 tfor:TF2834|3end_cardiolipin_synthase_3027496..3027646_POSITIVE 274 100 51 138 85 tfor:TF2154|3end_conserved_hypothetical_protein_2329529..2329679_POSITIVE 274 109 70 57 10 tfor:TF2036|3end_possible_pyruvate_formate-lyase_activating_enzyme_2196837..2196987_POSITIVE 272 109 69 135 105 tfor:TF2281|3end_hypothetical_protein_2439995..2440145_POSITIVE 268 79 39 148 105 tfor:TF2587|3end_hypothetical_protein_2752212..2752362_POSITIVE 268 110 62 114 50 tfor:TF0068|3end_arylsulfatase_regulator/oxidoreductase_74924..75074_POSITIVE 267 85 43 150 114 tfor:TF1686|3end_alginate_O-acetylation_protein_1802068..1802218_POSITIVE