Origin IGS: tttttctcctctatcattgattgcagttccttgattataccatcaaaagggattttttggcaagatagaagaaaaggaaaagcgatccacttaagtctcgcctgcttgttc .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 gaacaagcaggcgagacttaagtggatcgcttttccttttcttctatcttgccaaaaaatcccttttgatggtataatcaaggaactgcaatcaatgatagaggagaaaaa Mask Tandem Repeat Region ================================================ tttttctcctctatcattgattgcagttccttgattataccatcaaaagggattttttggcaagatagaagaaaaggaaaagcgatccacttaagtctcgcctgcttgttc Find is-nt database================================================ Query_seq: SSA_1636:SSA_1638|SSA_1636:SSA_1638:ABC-type antibiotic exporter, ATPase component, putative:hypothetical protein:<-<-:1640996..1641106 111 tttttctcctctatcattgattgcagttccttgattataccatcaaaagggattttttggcaagatagaagaaaaggaaaagcgatccacttaagtctcgcctgcttgttc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SSA_1636:SSA_1638|SSA_1636:SSA_1638:ABC-type antibiotic exporter, ATPase component, putative:hypothetical protein:<-<-:1640996..1641106 111 tttttctcctctatcattgattgcagttccttgattataccatcaaaagggattttttggcaagatagaagaaaaggaaaagcgatccacttaagtctcgcctgcttgttc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SSA_1636:SSA_1638|SSA_1636:SSA_1638:ABC-type antibiotic exporter, ATPase component, putative:hypothetical protein:<-<-:1640996..1641106 111 tttttctcctctatcattgattgcagttccttgattataccatcaaaagggattttttggcaagatagaagaaaaggaaaagcgatccacttaagtctcgcctgcttgttc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tttttctcctctatcattgattgcagttccttgattataccatcaaaagggattttttggcaagatagaagaaaaggaaaagcgatccacttaagtctcgcctgcttgttc Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: + Start: 13 End: 111 ............ M I D C S S L I I P S K G I F W Q D R R K G K A I H L S L A C L F tttttctcctctatcattgattgcagttccttgattataccatcaaaagggattttttggcaagatagaagaaaaggaaaagcgatccacttaagtctcgcctgcttgttc 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================================================ tttttctcctctatcattgattgcagttccttgattataccatcaaaagggattttttggcaagatagaagaaaaggaaaagcgatccacttaagtctcgcctgcttgttc Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SSA_1636:SSA_1638|SSA_1636:SSA_1638:ABC-type antibiotic exporter, ATPase component, putative:hypothetical protein:<-<-:1640996..1641106 111 tttttctcctctatcattgattgcagttccttgattataccatcaaaagggattttttggcaagatagaagaaaaggaaaagcgatccacttaagtctcgcctgcttgttc Intra-Species Hit: Count: 1 Min: 1 Max: 111 Len: 111 Subject: NC_009009_SSA_1636_SSA_1638|ABC-type antibiotic exporter, ATPase component, putative:hypothetical protein|NEGATIVE:NEGATIVE|[1640996,1641106]|111 HSP 1 e-value: 7.0E-57 bit: 220.0 Len: 111 Query Start:1 Query End:111 Subject Strand: POSITIVE Subject Start: 1 Subject End: 111 tttttctcctctatcattgattgcagttccttgattataccatcaaaagggattttttggcaagatagaagaaaaggaaaagcgatccacttaagtctcgcctgcttgttc tttttctcctctatcattgattgcagttccttgattataccatcaaaagggattttttggcaagatagaagaaaaggaaaagcgatccacttaagtctcgcctgcttgttc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUUUCUCCUCUAUCAUUGAUUGCAGUUCCUUGAUUAUACCAUCAAAAGGGAUUUUUUGGCAAGAUAGAAGAAAAGGAAAAGCGAUCCACUUAAGUCUCGCCUGCUUGUUC (((((((..((((((.(((.....(((((((((((......))))..)))))))......)))))))))))))))).....((((..(......)..)))).......... (-23.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAACAAGCAGGCGAGACUUAAGUGGAUCGCUUUUCCUUUUCUUCUAUCUUGCCAAAAAAUCCCUUUUGAUGGUAUAAUCAAGGAACUGCAAUCAAUGAUAGAGGAGAAAAA ........((((((..(......)..))))))....(((((((((((((((........(((...(((((......))))))))........))).))))))))))))... (-28.19) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 897 110 61 201 152 NC_009009:SSA_1636|5end_ABC-type_antibiotic_exporter,_ATPase_component,_putative_1640905..1641135_NEGATIVE 293 46 6 79 42 NC_009009:SSA_0481|5end_Cobyric_acid_synthase,_putative_481962..482192_POSITIVE 291 110 73 144 106 NC_009009:SSA_0680|5end_Serine/threonine_protein_phosphatase,_putative_662425..662655_POSITIVE 273 106 62 206 167 NC_009009:SSA_0962|5end_Lactoylglutathione_lyase,_putative_970965..971195_POSITIVE 272 49 1 154 91 NC_009009:SSA_2161|5end_NTP_pyrophosphohydrolases_including_oxidative_damage_repair_enzymes,_putative_2160600..2160830_NEGATIVE 272 50 1 143 94 NC_009009:SSA_0487|5end_Delta-aminolevulinic_acid_dehydratase,_putative_487349..487579_POSITIVE 263 65 23 125 93 NC_009009:SSA_1281|5end_Uracil-DNA_glycosylase,_putative_1302192..1302422_NEGATIVE 262 50 1 96 48 NC_009009:SSA_0663|5end_Acetyltransferase,_putative_648352..648582_POSITIVE 259 90 46 220 167 NC_009009:SSA_0729|5end_hypothetical_protein_714397..714627_POSITIVE 256 62 21 172 121 NC_009009:SSA_0789|5end_Proton-translocating_ATPase,_F1_sector,_epsilon_subunit,_putative_772451..772681_POSITIVE 254 110 69 197 160 NC_009009:SSA_1869|5end_ATP-dependent_RNA_helicase,_putative_1865495..1865725_NEGATIVE 254 66 21 203 164 NC_009009:SSA_1040|5end_Sugar_ABC_transporter,_permease_protein,_putative_1055302..1055532_POSITIVE 251 107 65 171 121 NC_009009:SSA_1849|5end_Primosomal_protein_N',_putative_1845649..1845879_NEGATIVE 246 107 82 153 128 NC_009009:SSA_2101|5end_Amino_acid_ABC_transporter,_periplasmic_amino_acid-binding_protein,_putative_2105393..2105623_NEGATIVE 240 105 61 150 99 NC_009009:SSA_1156|5end_hypothetical_protein_1184562..1184792_POSITIVE 238 104 67 46 7 NC_009009:SSA_0620|5end_hypothetical_protein_612325..612555_NEGATIVE 237 47 2 88 37 NC_009009:SSA_0749|5end_Competence_protein,_putative_730668..730898_POSITIVE 236 65 26 53 9 NC_009009:SSA_0157|5end_hypothetical_protein_153513..153743_POSITIVE 235 44 4 145 98 NC_009009:SSA_2243|5end_Conserved_uncharacterized_protein_2239341..2239571_NEGATIVE 235 49 3 49 3 NC_009009:SSA_0879|5end_Cell_division_regulator,_negative_regulator_of_FtsZ_septation_ring_formation,_putative_873632..873862_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 293 107 75 89 59 NC_009009:SSA_1309|3end_RNA-binding_protein_(KH_domain),_putative_1327079..1327229_NEGATIVE 293 46 6 94 57 NC_009009:SSA_0480|3end_Cobalt_ABC_transporter,_ATP-binding_protein,_putative_482057..482207_POSITIVE 291 110 73 91 53 NC_009009:SSA_0679|3end_DNA_repair_and_genetic_recombination,_putative_662452..662602_POSITIVE 284 110 61 75 25 NC_009009:SSA_1245|3end_Transcriptional_regulator,_LysR_family,_putative_1269710..1269860_POSITIVE 273 106 62 92 53 NC_009009:SSA_0961|3end_Possible_ketopantoate_reductase_PanE/ApbA,_putative_970931..971081_POSITIVE 263 65 23 71 39 NC_009009:SSA_1282|3end_Dipeptidase_V,_putative_1302246..1302396_NEGATIVE 254 110 69 92 55 NC_009009:SSA_1870|3end_Phospho-N-acetylmuramoyl-pentapeptide-_transferase,_putative_1865600..1865750_NEGATIVE 251 107 65 110 60 NC_009009:SSA_1850|3end_DNA-directed_RNA_polymerase,_subunit_K/omega,_putative_1845710..1845860_NEGATIVE 247 109 70 111 67 NC_009009:SSA_1801|3end_hypothetical_protein_1782652..1782802_NEGATIVE 247 43 6 132 94 NC_009009:SSA_0245|3end_hypothetical_protein_239608..239758_POSITIVE 246 107 82 137 112 NC_009009:SSA_2102|3end_Conserved_uncharacterized_protein_2105409..2105559_NEGATIVE 245 108 72 126 93 NC_009009:SSA_1869|3end_ATP-dependent_RNA_helicase,_putative_1864152..1864302_NEGATIVE 240 105 61 148 97 NC_009009:SSA_1155|3end_Serine_hydroxymethyltransferase,_putative_1184640..1184790_POSITIVE 240 46 1 149 107 NC_009009:SSA_0486|3end_Uroporphyrinogen-III_synthase,_putative_487442..487592_POSITIVE 238 104 67 49 10 NC_009009:SSA_0621|3end_SOS_responce_UmuC_protein,_putative_612322..612472_NEGATIVE 236 107 76 134 101 NC_009009:SSA_2211|3end_Transmembrane_protein,_putative_2211499..2211649_NEGATIVE 235 110 62 92 35 NC_009009:SSA_0564|3end_Potential_aminotransferase,_putative_556988..557138_POSITIVE 232 50 3 142 82 NC_009009:SSA_1959|3end_Undecaprenyl-diphosphatase,_putative_1955589..1955739_NEGATIVE 231 99 56 99 45 NC_009009:SSA_1824|3end_hypothetical_protein_1812516..1812666_NEGATIVE 229 108 75 59 23 NC_009009:SSA_1800|3end_UDP-N-acetylmuramate--L-alanine_ligase,_putative_1781037..1781187_NEGATIVE