Origin IGS: atatcctcacttatgtttatacttcttaaattaatgaattagtggtactattgagctagatcaattttacacgattttttttcaatttttctgtaatttggggcataa .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ttatgccccaaattacagaaaaattgaaaaaaaatcgtgtaaaattgatctagctcaatagtaccactaattcattaatttaagaagtataaacataagtgaggatat Mask Tandem Repeat Region ================================================ atatcctcacttatgtttatacttcttaaattaatgaattagtggtactattgagctagatcaattttacacgattttttttcaatttttctgtaatttggggcataa Find is-nt database================================================ Query_seq: AA02123:AA02124|AA02123:AA02124:hypothetical protein:anaerobic regulatory protein; transcription regulator Fnr:->->:1448552..1448659 108 atatcctcacttatgtttatacttcttaaattaatgaattagtggtactattgagctagatcaattttacacgattttttttcaatttttctgtaatttggggcataa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02123:AA02124|AA02123:AA02124:hypothetical protein:anaerobic regulatory protein; transcription regulator Fnr:->->:1448552..1448659 108 atatcctcacttatgtttatacttcttaaattaatgaattagtggtactattgagctagatcaattttacacgattttttttcaatttttctgtaatttggggcataa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02123:AA02124|AA02123:AA02124:hypothetical protein:anaerobic regulatory protein; transcription regulator Fnr:->->:1448552..1448659 108 atatcctcacttatgtttatacttcttaaattaatgaattagtggtactattgagctagatcaattttacacgattttttttcaatttttctgtaatttggggcataa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 atatcctcacttatgtttatacttcttaaattaatgaattagtggtactattgagctagatcaattttacacgattttttttcaatttttctgtaatttggggcataa Predict ORF larger than 30AA ================================================ atatcctcacttatgtttatacttcttaaattaatgaattagtggtactattgagctagatcaattttacacgattttttttcaatttttctgtaatttggggcataa 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================================================ atatcctcacttatgtttatacttcttaaattaatgaattagtggtactattgagctagatcaattttacacgattttttttcaatttttctgtaatttggggcataa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA02123:AA02124|AA02123:AA02124:hypothetical protein:anaerobic regulatory protein; transcription regulator Fnr:->->:1448552..1448659 108 atatcctcacttatgtttatacttcttaaattaatgaattagtggtactattgagctagatcaattttacacgattttttttcaatttttctgtaatttggggcataa Intra-Species Hit: Count: 1 Min: 1 Max: 108 Len: 108 Subject: aact_AA02123_AA02124|hypothetical protein:anaerobic regulatory protein; transcription regulator Fnr|POSITIVE:POSITIVE|[1448552,1448659]|108 HSP 1 e-value: 9.0E-41 bit: 167.0 Len: 108 Query Start:1 Query End:108 Subject Strand: POSITIVE Subject Start: 1 Subject End: 108 atatcctcacttatgtttatacttcttaaattaatgaattagtggtactattgagctagatcaattttacacgannnnnnnncaatttttctgtaatttggggcataa atatcctcacttatgtttatacttcttaaattaatgaattagtggtactattgagctagatcaattttacacgattttttttcaatttttctgtaatttggggcataa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUAUCCUCACUUAUGUUUAUACUUCUUAAAUUAAUGAAUUAGUGGUACUAUUGAGCUAGAUCAAUUUUACACGAUUUUUUUUCAAUUUUUCUGUAAUUUGGGGCAUAA ...........(((((........(((((((((..(((......(((..(((((......)))))..)))..((.......)).....)))..)))))))))))))). (-13.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUAUGCCCCAAAUUACAGAAAAAUUGAAAAAAAAUCGUGUAAAAUUGAUCUAGCUCAAUAGUACCACUAAUUCAUUAAUUUAAGAAGUAUAAACAUAAGUGAGGAUAU ((((((...((((((..(((...((....)).....(((((..(((((......)))))..)).)))...)))..)))))).....))))))................ ( -9.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 253 78 41 128 94 aact:AA00188|5end_conserved_hypothetical_protein_132660..132890_POSITIVE 236 50 7 161 128 aact:AA00533|5end_conserved_hypothetical_protein_365323..365553_POSITIVE 214 77 41 84 55 aact:AA01662|5end_molybdopterin_biosynthesis_protein_1126131..1126361_POSITIVE 194 50 9 137 102 aact:AA00438|5end_probable_chromosomal_partitioning_protein_(ParB-like_family)_302991..303221_POSITIVE 179 56 23 229 195 aact:AA00670|5end_hypothetical_protein_460102..460332_POSITIVE 178 97 52 191 152 aact:AA01278|5end_hypothetical_protein_867511..867741_POSITIVE 177 94 54 138 98 aact:AA02745|5end_isopentenyl_monophosphate_kinase_1923279..1923509_POSITIVE 177 77 40 206 175 aact:AA01231|5end_30S_ribosomal_protein_S14_840103..840333_POSITIVE 176 56 14 129 85 aact:AA01306|5end_glutathione_reductase_886538..886768_POSITIVE 173 98 63 81 51 aact:AA02172|5end_conserved_hypothetical_protein_1486019..1486249_POSITIVE 173 69 21 175 127 aact:AA00198|5end_conserved_hypothetical_protein_(Cytosine_deaminase-related_enzyme)_138039..138269_POSITIVE 172 75 42 213 178 aact:AA02604|5end_thioredoxin_reductase_1815552..1815782_POSITIVE 171 77 34 203 158 aact:AA00998|5end_small_protein_A_homolog_698525..698755_POSITIVE 170 64 21 199 156 aact:AA02726|5end_anaerobic_C4-dicarboxylate_transporter_1907978..1908208_POSITIVE 170 79 37 62 11 aact:AA02270|5end_endopeptidase_La;_lon_protease;_protease_La_homolog;_ATP-dependent_protease_LA_(lon-1)_1546870..1547100_POSITIVE 170 67 29 198 164 aact:AA01149|5end_glycyl-tRNA_synthetase_beta_subunit_786027..786257_POSITIVE 167 78 42 202 170 aact:AA00034|5end_NTP-binding_protein_26374..26604_POSITIVE 166 48 12 147 119 aact:AA02148|5end_hypothetical_protein_1469437..1469667_POSITIVE 166 65 22 45 7 aact:AA01985|5end_pyruvate_dehydrogenase,_E1_component_1346067..1346297_POSITIVE 166 74 43 72 44 aact:AA00037|5end_conserved_hypothetical_protein_29170..29400_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 253 78 41 143 109 aact:AA00187|3end_conserved_hypothetical_protein_132755..132905_POSITIVE 236 50 7 143 110 aact:AA00531|3end_DNA_polymerase_I_365385..365535_POSITIVE 214 77 41 65 36 aact:AA01661|3end_molybdopterin_biosynthesis_protein_1126192..1126342_POSITIVE 194 50 9 141 106 aact:AA00437|3end_conserved_hypothetical_protein;_possible_parB-like_nuclease_303075..303225_POSITIVE 178 97 52 44 5 aact:AA01277|3end_aspartate_ammonia-lyase_867444..867594_POSITIVE 177 94 54 135 95 aact:AA02743|3end_outer_membrane_lipoprotein_precursor/glutamyl-tRNA_reductase_subunit_1923356..1923506_POSITIVE 177 94 51 118 82 aact:AA02115|3end_hypothetical_protein_1444991..1445141_POSITIVE 177 94 51 118 82 aact:AA01075|3end_hypothetical_protein_746068..746218_POSITIVE 177 94 51 118 82 aact:AA00008|3end_hypothetical_protein_(possible_transposase_fragment)_5495..5645_POSITIVE 173 98 63 78 48 aact:AA02171|3end_polysialic_acid_capsule_expression_protein_1486096..1486246_POSITIVE 173 69 21 71 23 aact:AA00196|3end_conserved_hypothetical_protein_138015..138165_POSITIVE 172 75 42 150 115 aact:AA02603|3end_possible_thioredoxin_trxA_homolog_1815569..1815719_POSITIVE 170 67 29 113 79 aact:AA01148|3end_hypothetical_protein_786022..786172_POSITIVE 168 77 34 143 104 aact:AA00404|3end_conserved_hypothetical_protein_270333..270483_POSITIVE 166 48 12 107 79 aact:AA02146|3end_iron(III)_ABC_transporter,_ATP-binding_protein_1469477..1469627_POSITIVE 166 74 43 76 48 aact:AA00036|3end_transposase_29254..29404_POSITIVE 164 88 50 71 41 aact:AA01215|3end_aspartate-semialdehyde_dehydrogenase_831713..831863_POSITIVE 163 94 51 109 74 aact:AA02340|3end_hypothetical_protein_1599341..1599491_POSITIVE 161 84 42 130 91 aact:AA02573|3end_ABC_transporter,_ATP-binding_protein_1792429..1792579_POSITIVE 161 95 51 81 24 aact:AA00606|3end_membrane-associated_zinc_metalloprotease_413219..413369_POSITIVE