Origin IGS: taaattttctcctctagacacaattaaattaatatacacgaagctaggctagcataaacaaattacccacataggtaaataccatttttaattaaattagttcaaccattttatctaaattttatttaatgattggtttttctcattttttattgtaatctttagctcatcctacttgtgtagaggtgcaaacgttataagtatattttccga .........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 tcggaaaatatacttataacgtttgcacctctacacaagtaggatgagctaaagattacaataaaaaatgagaaaaaccaatcattaaataaaatttagataaaatggttgaactaatttaattaaaaatggtatttacctatgtgggtaatttgtttatgctagcctagcttcgtgtatattaatttaattgtgtctagaggagaaaattta Mask Tandem Repeat Region ================================================ taaattttctcctctagacacaattaaattaatatacacgaagctaggctagcataaacaaattacccacataggtaaataccatttttaattaaattagttcaaccattttatctaaattttatttaatgattggtttttctcattttttattgtaatctttagctcatcctacttgtgtagaggtgcaaacgttataagtatattttccga Find is-nt database================================================ Query_seq: AA02292:AA02293|AA02292:AA02293:DNA-binding protein H-NS:hypothetical protein:->->:1563458..1563670 213 taaattttctcctctagacacaattaaattaatatacacgaagctaggctagcataaacaaattacccacataggtaaataccatttttaattaaattagttcaaccattttatctaaattttatttaatgattggtttttctcattttttattgtaatctttagctcatcctacttgtgtagaggtgcaaacgttataagtatattttccga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02292:AA02293|AA02292:AA02293:DNA-binding protein H-NS:hypothetical protein:->->:1563458..1563670 213 taaattttctcctctagacacaattaaattaatatacacgaagctaggctagcataaacaaattacccacataggtaaataccatttttaattaaattagttcaaccattttatctaaattttatttaatgattggtttttctcattttttattgtaatctttagctcatcctacttgtgtagaggtgcaaacgttataagtatattttccga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02292:AA02293|AA02292:AA02293:DNA-binding protein H-NS:hypothetical protein:->->:1563458..1563670 213 taaattttctcctctagacacaattaaattaatatacacgaagctaggctagcataaacaaattacccacataggtaaataccatttttaattaaattagttcaaccattttatctaaattttatttaatgattggtttttctcattttttattgtaatctttagctcatcctacttgtgtagaggtgcaaacgttataagtatattttccga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaattttctcctctagacacaattaaattaatatacacgaagctaggctagcataaacaaattacccacataggtaaataccatttttaattaaattagttcaaccattttatctaaattttatttaatgattggtttttctcattttttattgtaatctttagctcatcctacttgtgtagaggtgcaaacgttataagtatattttccga Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: + Start: 119 End: 211 ...................................................................................................................... M L F N D W F F S F F I V I F S S S Y L C R G A N V I S I F S .. taaattttctcctctagacacaattaaattaatatacacgaagctaggctagcataaacaaattacccacataggtaaataccatttttaattaaattagttcaaccattttatctaaattttatttaatgattggtttttctcattttttattgtaatctttagctcatcctacttgtgtagaggtgcaaacgttataagtatattttccga 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================================================ taaattttctcctctagacacaattaaattaatatacacgaagctaggctagcataaacaaattacccacataggtaaataccatttttaattaaattagttcaaccattttatctaaattttatttaatgattggtttttctcattttttattgtaatctttagctcatcctacttgtgtagaggtgcaaacgttataagtatattttccga Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA02292:AA02293|AA02292:AA02293:DNA-binding protein H-NS:hypothetical protein:->->:1563458..1563670 213 taaattttctcctctagacacaattaaattaatatacacgaagctaggctagcataaacaaattacccacataggtaaataccatttttaattaaattagttcaaccattttatctaaattttatttaatgattggtttttctcattttttattgtaatctttagctcatcctacttgtgtagaggtgcaaacgttataagtatattttccga Intra-Species Hit: Count: 1 Min: 1 Max: 213 Len: 213 Subject: aact_AA02292_AA02293|DNA-binding protein H-NS:hypothetical protein|POSITIVE:POSITIVE|[1563458,1563670]|213 HSP 1 e-value: 4.0E-54 bit: 212.0 Len: 107 Query Start:1 Query End:107 Subject Strand: POSITIVE Subject Start: 1 Subject End: 107 taaattttctcctctagacacaattaaattaatatacacgaagctaggctagcataaacaaattacccacataggtaaataccatttttaattaaattagttcaacc.......................................................................................................... taaattttctcctctagacacaattaaattaatatacacgaagctaggctagcataaacaaattacccacataggtaaataccatttttaattaaattagttcaacc.......................................................................................................... HSP 2 e-value: 1.0E-19 bit: 97.6 Len: 49 Query Start:165 Query End:213 Subject Strand: POSITIVE Subject Start: 165 Subject End: 213 ....................................................................................................................................................................gctcatcctacttgtgtagaggtgcaaacgttataagtatattttccga ....................................................................................................................................................................gctcatcctacttgtgtagaggtgcaaacgttataagtatattttccga Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAUUUUCUCCUCUAGACACAAUUAAAUUAAUAUACACGAAGCUAGGCUAGCAUAAACAAAUUACCCACAUAGGUAAAUACCAUUUUUAAUUAAAUUAGUUCAACCAUUUUAUCUAAAUUUUAUUUAAUGAUUGGUUUUUCUCAUUUUUUAUUGUAAUCUUUAGCUCAUCCUACUUGUGUAGAGGUGCAAACGUUAUAAGUAUAUUUUCCGA ....(((.(.((((((.((...((((...)))).......(((.((((..(((.........(((((......)))))..........((((.((((.((...(((((..((((.(((((...))))))))).)))))...)).))))...)))).........)))...))))))))).)))))).).)))..................... (-27.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCGGAAAAUAUACUUAUAACGUUUGCACCUCUACACAAGUAGGAUGAGCUAAAGAUUACAAUAAAAAAUGAGAAAAACCAAUCAUUAAAUAAAAUUUAGAUAAAAUGGUUGAACUAAUUUAAUUAAAAAUGGUAUUUACCUAUGUGGGUAAUUUGUUUAUGCUAGCCUAGCUUCGUGUAUAUUAAUUUAAUUGUGUCUAGAGGAGAAAAUUUA ...........................(((((((((((.((((...(((...(((((((.(((...............((((((((.................))))))))...................(((....)))..)))..)))))))......)))..))))((.....))............))))))..))))).......... (-31.43) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 263 194 160 47 4 aact:AA01928|5end_ATP-dependent_RNA_helicase_1301986..1302216_POSITIVE 256 190 142 161 100 aact:AA01291|5end_excinuclease_ABC_subunit_A_872829..873059_POSITIVE 250 210 164 222 173 aact:AA02057|5end_phosphoglycerate_mutase_1401253..1401483_POSITIVE 236 198 162 168 132 aact:AA02529|5end_cytidylate_kinase_1_1757713..1757943_POSITIVE 232 189 142 131 87 aact:AA03009|5end_hypothetical_protein_2101001..2101231_POSITIVE 225 194 153 124 89 aact:AA02824|5end_conserved_hypothetical_protein_1986131..1986361_POSITIVE 223 190 142 231 188 aact:AA03010|5end_thiophene_and_furan_oxidation_protein_2101102..2101332_POSITIVE 220 89 44 95 40 aact:AA02521|5end_conserved_hypothetical_protein_1752603..1752833_POSITIVE 220 200 165 162 129 aact:AA00506|5end_ATP-dependent_RNA_helicase_protein_351681..351911_POSITIVE 220 200 165 42 9 aact:AA00505|5end_hypothetical_protein_351561..351791_POSITIVE 217 81 43 212 171 aact:AA01141|5end_conserved_hypothetical_protein_(possible_component_of_anaerobic_dehydrogenase/oxidoreductase)_782497..782727_POSITIVE 213 182 141 131 93 aact:AA02434|5end_membrane_protein_1678547..1678777_POSITIVE 212 202 165 140 101 aact:AA00635|5end_dihydropteroate_synthase_435897..436127_POSITIVE 209 205 161 93 49 aact:AA03014|5end_conserved_hypothetical_protein_2104815..2105045_POSITIVE 209 169 121 218 172 aact:AA02269|5end_3-hydroxydecanoyl-(acyl-carrier_protein)_dehydratase_1546197..1546427_POSITIVE 206 188 150 114 63 aact:AA01527|5end_hypothetical_protein_1025704..1025934_POSITIVE 206 210 166 212 159 aact:AA01153|5end_sec-independent_protein_translocase_790166..790396_POSITIVE 202 198 158 172 137 aact:AA02904|5end_50S_ribosomal_protein_L31_2032290..2032520_POSITIVE 202 80 38 179 143 aact:AA01460|5end_hypothetical_protein_981412..981642_POSITIVE 201 197 151 218 161 aact:AA02676|5end_formate_dehydrogenase_alpha_subunit_1861671..1861901_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 256 190 142 100 39 aact:AA01289|3end_hypothetical_protein_872848..872998_POSITIVE 236 198 162 67 31 aact:AA02528|3end_30S_ribosomal_protein_S1_1757692..1757842_POSITIVE 232 189 142 122 78 aact:AA03008|3end_GTP-binding_protein_era_homolog_(GTPase)_2101072..2101222_POSITIVE 231 204 164 147 110 aact:AA02056|3end_tetrahydrofolylpolyglutamate_synthase_(FPGS)_1401270..1401420_POSITIVE 225 194 153 82 47 aact:AA02823|3end_exodeoxyribonuclease_V_gamma_chain_1986169..1986319_POSITIVE 220 200 165 134 101 aact:AA00505|3end_hypothetical_protein_351733..351883_POSITIVE 215 73 31 71 26 aact:AA00316|3end_conserved_hypothetical_protein_215340..215490_POSITIVE 208 76 31 75 29 aact:AA01871|3end_conserved_hypothetical_protein_1258710..1258860_POSITIVE 201 190 163 135 110 aact:AA01487|3end_ATP_synthase_F1,_subunit_delta_1000739..1000889_POSITIVE 200 205 162 44 1 aact:AA03013|3end_ribonuclease_P_protein_component_2104846..2104996_POSITIVE 198 196 159 58 28 aact:AA02075|3end_conserved_hypothetical_protein_1409979..1410129_POSITIVE 198 196 164 71 37 aact:AA01280|3end_groES_chaperonin_868530..868680_POSITIVE 197 189 146 116 81 aact:AA00429|3end_conserved_hypothetical_protein_291891..292041_POSITIVE 196 150 105 145 94 aact:AA02652|3end_conserved_hypothetical_protein_1848591..1848741_POSITIVE 194 189 141 124 73 aact:AA02199|3end_hypothetical_protein_1497901..1498051_POSITIVE 193 198 174 66 42 aact:AA02523|3end_conserved_hypothetical_protein_1753384..1753534_POSITIVE 189 79 43 124 86 aact:AA02928|3end_conserved_hypothetical_protein_2049244..2049394_POSITIVE 189 50 13 120 87 aact:AA01227|3end_hypothetical_protein_838845..838995_POSITIVE 188 191 162 140 114 aact:AA02610|3end_acyl-CoA_thioesterase_II_1821314..1821464_POSITIVE 186 205 176 49 15 aact:AA01810|3end_electron_transport_complex_protein_1220406..1220556_POSITIVE