Origin IGS: cctatagagatatacctatagttttataagacttccttagcctatatactgtatgatataatgaaatgtggaatttttttatagaaaatttcgcaaagtttaggggaaattttataaagttaaacaatgggagtttacaaa .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tttgtaaactcccattgtttaactttataaaatttcccctaaactttgcgaaattttctataaaaaaattccacatttcattatatcatacagtatataggctaaggaagtcttataaaactataggtatatctctatagg Mask Tandem Repeat Region ================================================ cctatagagatatacctatagttttataagacttccttagcctatatactgtatgatataatgaaatgtggaatttttttatagaaaatttcgcaaagtttaggggaaattttataaagttaaacaatgggagtttacaaa Find is-nt database================================================ Query_seq: SSA_0506:SSA_0507|SSA_0506:SSA_0507:Iron-sulfur cluster-binding protein, putative:hypothetical protein:<-->:505720..505860 141 cctatagagatatacctatagttttataagacttccttagcctatatactgtatgatataatgaaatgtggaatttttttatagaaaatttcgcaaagtttaggggaaattttataaagttaaacaatgggagtttacaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SSA_0506:SSA_0507|SSA_0506:SSA_0507:Iron-sulfur cluster-binding protein, putative:hypothetical protein:<-->:505720..505860 141 cctatagagatatacctatagttttataagacttccttagcctatatactgtatgatataatgaaatgtggaatttttttatagaaaatttcgcaaagtttaggggaaattttataaagttaaacaatgggagtttacaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SSA_0506:SSA_0507|SSA_0506:SSA_0507:Iron-sulfur cluster-binding protein, putative:hypothetical protein:<-->:505720..505860 141 cctatagagatatacctatagttttataagacttccttagcctatatactgtatgatataatgaaatgtggaatttttttatagaaaatttcgcaaagtttaggggaaattttataaagttaaacaatgggagtttacaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 cctatagagatatacctatagttttataagacttccttagcctatatactgtatgatataatgaaatgtggaatttttttatagaaaatttcgcaaagtttaggggaaattttataaagttaaacaatgggagtttacaaa Predict ORF larger than 30AA ================================================ Protein_Len: 42 Strand: - Start: 5 End: 127 .... * L S I G I T K Y S K R L R Y V T H Y L S I H F K K I S F K A F N L P F K I F N F M .............. cctatagagatatacctatagttttataagacttccttagcctatatactgtatgatataatgaaatgtggaatttttttatagaaaatttcgcaaagtttaggggaaattttataaagttaaacaatgggagtttacaaa 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================================================ cctatagagatatacctatagttttataagacttccttagcctatatactgtatgatataatgaaatgtggaatttttttatagaaaatttcgcaaagtttaggggaaattttataaagttaaacaatgggagtttacaaa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SSA_0506:SSA_0507|SSA_0506:SSA_0507:Iron-sulfur cluster-binding protein, putative:hypothetical protein:<-->:505720..505860 141 cctatagagatatacctatagttttataagacttccttagcctatatactgtatgatataatgaaatgtggaatttttttatagaaaatttcgcaaagtttaggggaaattttataaagttaaacaatgggagtttacaaa Intra-Species Hit: Count: 1 Min: 1 Max: 141 Len: 141 Subject: NC_009009_SSA_0506_SSA_0507|Iron-sulfur cluster-binding protein, putative:hypothetical protein|NEGATIVE:POSITIVE|[505720,505860]|141 HSP 1 e-value: 4.0E-62 bit: 238.0 Len: 141 Query Start:1 Query End:141 Subject Strand: POSITIVE Subject Start: 1 Subject End: 141 cctatagagatatacctatagttttataagacttccttagcctatatactgtatgatataatgaaatgtggaannnnnnnatagaaaatttcgcaaagtttaggggaaattttataaagttaaacaatgggagtttacaaa cctatagagatatacctatagttttataagacttccttagcctatatactgtatgatataatgaaatgtggaatttttttatagaaaatttcgcaaagtttaggggaaattttataaagttaaacaatgggagtttacaaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CCUAUAGAGAUAUACCUAUAGUUUUAUAAGACUUCCUUAGCCUAUAUACUGUAUGAUAUAAUGAAAUGUGGAAUUUUUUUAUAGAAAAUUUCGCAAAGUUUAGGGGAAAUUUUAUAAAGUUAAACAAUGGGAGUUUACAAA .((((((........)))))).(((((((((.((((((....(((((........)))))......((((((((((((.....)))))))))))).......)))))).)))))))))..(((((.......))))).... (-28.40) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUGUAAACUCCCAUUGUUUAACUUUAUAAAAUUUCCCCUAAACUUUGCGAAAUUUUCUAUAAAAAAAUUCCACAUUUCAUUAUAUCAUACAGUAUAUAGGCUAAGGAAGUCUUAUAAAACUAUAGGUAUAUCUCUAUAGG ....(((((.......)))))..(((((((.((((((((((.....((.(((.((((......)))).)))))........(((((......)))))))))....)))))).))))))).(((((((......))))))). (-20.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 788 50 1 141 92 NC_009009:SSA_0506|5end_Iron-sulfur_cluster-binding_protein,_putative_505629..505859_NEGATIVE 265 47 1 107 66 NC_009009:SSA_2250|5end_ABC-type_antimicrobial_peptide_transporter,_permease_component,_putative_2246411..2246641_NEGATIVE 243 110 63 230 179 NC_009009:SSA_1358|5end_hypothetical_protein_1374036..1374266_NEGATIVE 219 40 1 105 58 NC_009009:SSA_0992|5end_hypothetical_protein_993486..993716_POSITIVE 215 46 15 158 131 NC_009009:SSA_0435|5end_Urocanate_hydratase,_putative_438719..438949_NEGATIVE 208 115 71 214 171 NC_009009:SSA_2129|5end_Arsenical_resistance_operon_transcription_repressor_(ArsR),_putative_2133308..2133538_NEGATIVE 202 42 5 84 38 NC_009009:SSA_2347|5end_Coenzyme_F390_synthetase,_putative_2349939..2350169_NEGATIVE 201 48 7 112 71 NC_009009:SSA_1468|5end_3-dehydroquinate_synthase,_putative_1475452..1475682_NEGATIVE 199 114 73 77 34 NC_009009:SSA_1289|5end_hypothetical_protein_1308385..1308615_NEGATIVE 198 49 6 165 129 NC_009009:SSA_0514|5end_PduQ_protein,_putative_512877..513107_POSITIVE 197 130 81 184 142 NC_009009:SSA_1005|5end_Sugar_ABC_transporter,_permease_protein,_putative_1006028..1006258_POSITIVE 194 64 29 126 95 NC_009009:SSA_0322|5end_Transcriptional_activator,_TipA_family,_putative_314717..314947_POSITIVE 193 52 15 214 174 NC_009009:SSA_0039|5end_Phosphoribosylaminoimidazole_carboxylase,_catalytic_subunit,_putative_45833..46063_POSITIVE 192 71 33 62 20 NC_009009:SSA_0220|5end_PTS_system,_mannose-specific_IIB_component,_putative_215848..216078_POSITIVE 190 37 2 101 64 NC_009009:SSA_0708|5end_hypothetical_protein_694144..694374_POSITIVE 189 137 91 196 143 NC_009009:SSA_2292|5end_DNA_segregation_ATPase_FtsK/SpoIIIE-like_protein,_putative_2294173..2294403_POSITIVE 189 51 15 60 25 NC_009009:SSA_1715|5end_Phosphoserine_aminotransferase,_putative_1702488..1702718_NEGATIVE 186 41 4 106 67 NC_009009:SSA_1907|5end_hypothetical_protein_1900446..1900676_POSITIVE 185 46 1 92 39 NC_009009:SSA_1266|5end_crcB-like_protein_1,_putative_1291000..1291230_NEGATIVE 185 71 32 182 140 NC_009009:SSA_1254|5end_hypothetical_protein_1281484..1281714_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 212 44 4 79 37 NC_009009:SSA_1245|3end_Transcriptional_regulator,_LysR_family,_putative_1269710..1269860_POSITIVE 202 42 5 148 102 NC_009009:SSA_2348|3end_Metal_dependent_hydrolase,_putative_2349875..2350025_NEGATIVE 201 48 7 101 60 NC_009009:SSA_1469|3end_Shikimate_dehydrogenase,_putative_1475463..1475613_NEGATIVE 194 56 12 140 99 NC_009009:SSA_2157|3end_ATP-dependent_serine_protease,_putative_2157048..2157198_NEGATIVE 188 139 92 55 5 NC_009009:SSA_1373|3end_ATPase_components_of_ABC_transporters_with_duplicated_ATPase_domains,_multidrug_transport_system,_putative_1391313..1391463_POSITIVE 187 134 95 141 103 NC_009009:SSA_1536|3end_Biotin_synthase,_putative_1544234..1544384_POSITIVE 186 41 4 96 57 NC_009009:SSA_1906|3end_Diadenosine_tetraphosphate_(Ap4A)_hydrolase_(histidine_triad_protein,_cell-cycle_regulation),_putative_1900516..1900666_POSITIVE 185 46 1 119 66 NC_009009:SSA_1267|3end_crcB-like_protein_2,_putative_1290973..1291123_NEGATIVE 185 56 21 149 114 NC_009009:SSA_0674|3end_Exodeoxyribonuclease_VII_large_subunit,_putative_658491..658641_POSITIVE 185 58 23 112 76 NC_009009:SSA_0049|3end_Dihydroxyacetone_kinase_(Dak1),_putative_54681..54831_POSITIVE 182 55 20 113 87 NC_009009:SSA_1973|3end_Histidine_kinase,_putative_1968407..1968557_NEGATIVE 182 53 22 102 75 NC_009009:SSA_1568|3end_ABC_transporter_membrane-spanning_permease,_arginine/histidine_transport,_putative_1571960..1572110_POSITIVE 182 43 1 142 95 NC_009009:SSA_1235|3end_Dihydroorotase,_putative_1259959..1260109_NEGATIVE 181 43 7 104 70 NC_009009:SSA_2094|3end_Conserved_uncharacterized_protein_2097990..2098140_NEGATIVE 181 57 13 132 92 NC_009009:SSA_1759|3end_hypothetical_protein_1746664..1746814_NEGATIVE 179 133 92 139 105 NC_009009:SSA_0891|3end_3-carboxymuconate_cyclase,_putative_883023..883173_NEGATIVE 176 107 61 124 72 NC_009009:SSA_2292|3end_DNA_segregation_ATPase_FtsK/SpoIIIE-like_protein,_putative_2295353..2295503_POSITIVE 176 108 61 71 20 NC_009009:SSA_0435|3end_Urocanate_hydratase,_putative_436689..436839_NEGATIVE 175 56 29 109 80 NC_009009:SSA_0818|3end_SPX_domain-like_protein,_putative_800486..800636_POSITIVE 174 43 7 83 47 NC_009009:SSA_2027|3end_P-type_ATPase-metal/cation_transport_(probably_copper),_putative_2033109..2033259_NEGATIVE