Origin IGS: aaagcagacagatggatgtggtataatttcttcccagatactggagcatgctcaactaaaaactaatcatttcacaagccgtatatatatatcaaaaaggacgggaaaacacccatcctttttatgtgcaaataaccattgcttagcacc .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ggtgctaagcaatggttatttgcacataaaaaggatgggtgttttcccgtcctttttgatatatatatacggcttgtgaaatgattagtttttagttgagcatgctccagtatctgggaagaaattataccacatccatctgtctgcttt Mask Tandem Repeat Region ================================================ aaagcagacagatggatgtggtataatttcttcccagatactggagcatgctcaactaaaaactaatcatttcacaagccgtatatatatatcaaaaaggacgggaaaacacccatcctttttatgtgcaaataaccattgcttagcacc Find is-nt database================================================ Query_seq: SSA_2022:SSA_2023|SSA_2022:SSA_2023:Transcriptional regulator, MerR family (multidrug-efflux transporter genes), putative:Fructan beta-fructosidase precursor, putative:-><-:2024549..2024698 150 aaagcagacagatggatgtggtataatttcttcccagatactggagcatgctcaactaaaaactaatcatttcacaagccgtatatatatatcaaaaaggacgggaaaacacccatcctttttatgtgcaaataaccattgcttagcacc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SSA_2022:SSA_2023|SSA_2022:SSA_2023:Transcriptional regulator, MerR family (multidrug-efflux transporter genes), putative:Fructan beta-fructosidase precursor, putative:-><-:2024549..2024698 150 aaagcagacagatggatgtggtataatttcttcccagatactggagcatgctcaactaaaaactaatcatttcacaagccgtatatatatatcaaaaaggacgggaaaacacccatcctttttatgtgcaaataaccattgcttagcacc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SSA_2022:SSA_2023|SSA_2022:SSA_2023:Transcriptional regulator, MerR family (multidrug-efflux transporter genes), putative:Fructan beta-fructosidase precursor, putative:-><-:2024549..2024698 150 aaagcagacagatggatgtggtataatttcttcccagatactggagcatgctcaactaaaaactaatcatttcacaagccgtatatatatatcaaaaaggacgggaaaacacccatcctttttatgtgcaaataaccattgcttagcacc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aaagcagacagatggatgtggtataatttcttcccagatactggagcatgctcaactaaaaactaatcatttcacaagccgtatatatatatcaaaaaggacgggaaaacacccatcctttttatgtgcaaataaccattgcttagcacc Predict ORF larger than 30AA ================================================ Protein_Len: 42 Strand: + Start: 23 End: 148 ...................... M I S S Q I L E H A Q L K T N H F T S R I Y I S K R T G K H P S F L C A N N H C L A .. aaagcagacagatggatgtggtataatttcttcccagatactggagcatgctcaactaaaaactaatcatttcacaagccgtatatatatatcaaaaaggacgggaaaacacccatcctttttatgtgcaaataaccattgcttagcacc 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================================================ aaagcagacagatggatgtggtataatttcttcccagatactggagcatgctcaactaaaaactaatcatttcacaagccgtatatatatatcaaaaaggacgggaaaacacccatcctttttatgtgcaaataaccattgcttagcacc Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 76 HP_score: -4.9 Tail_Score: -4.9725 Start: 99 End: 118 Full_Region: TATATATATCAAAAA GGACGGG AAAACA CCCATCC TTTTTATGTGCAAAT ..................................................................................................GGACGGGAAAACACCCATCC................................ Find igs database================================================ Query_seq: SSA_2022:SSA_2023|SSA_2022:SSA_2023:Transcriptional regulator, MerR family (multidrug-efflux transporter genes), putative:Fructan beta-fructosidase precursor, putative:-><-:2024549..2024698 150 aaagcagacagatggatgtggtataatttcttcccagatactggagcatgctcaactaaaaactaatcatttcacaagccgtatatatatatcaaaaaggacgggaaaacacccatcctttttatgtgcaaataaccattgcttagcacc Intra-Species Hit: Count: 1 Min: 1 Max: 150 Len: 150 Subject: NC_009009_SSA_2022_SSA_2023|Transcriptional regulator, MerR family (multidrug-efflux transporter genes), putative:Fructan beta-fructosidase precursor, putative|POSITIVE:NEGATIVE|[2024549,2024698]|150 HSP 1 e-value: 5.0E-80 bit: 297.0 Len: 150 Query Start:1 Query End:150 Subject Strand: POSITIVE Subject Start: 1 Subject End: 150 aaagcagacagatggatgtggtataatttcttcccagatactggagcatgctcaactaaaaactaatcatttcacaagccgtatatatatatcaaaaaggacgggaaaacacccatcctttttatgtgcaaataaccattgcttagcacc aaagcagacagatggatgtggtataatttcttcccagatactggagcatgctcaactaaaaactaatcatttcacaagccgtatatatatatcaaaaaggacgggaaaacacccatcctttttatgtgcaaataaccattgcttagcacc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAGCAGACAGAUGGAUGUGGUAUAAUUUCUUCCCAGAUACUGGAGCAUGCUCAACUAAAAACUAAUCAUUUCACAAGCCGUAUAUAUAUAUCAAAAAGGACGGGAAAACACCCAUCCUUUUUAUGUGCAAAUAACCAUUGCUUAGCACC .((((((....((((.(((((.......(((....))).....(((....)))..................)))))..)))).....(((((.((((((((.(((......))).)))))))))))))..........))))))...... (-30.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GGUGCUAAGCAAUGGUUAUUUGCACAUAAAAAGGAUGGGUGUUUUCCCGUCCUUUUUGAUAUAUAUAUACGGCUUGUGAAAUGAUUAGUUUUUAGUUGAGCAUGCUCCAGUAUCUGGGAAGAAAUUAUACCACAUCCAUCUGUCUGCUUU .((((..(((....)))....)))).(((((((((((((......)))))))))))))............((..((((..((((((..(((((((..(((....)))......)))))))..))))))..)))).))............. (-38.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 312 80 32 70 18 NC_009009:SSA_0680|5end_Serine/threonine_protein_phosphatase,_putative_662425..662655_POSITIVE 307 124 94 225 196 NC_009009:SSA_1979|5end_Alkaline-shock_protein,_putative_1974301..1974531_NEGATIVE 284 47 5 96 54 NC_009009:SSA_0701|5end_Cation_transporter_CorA_family,_putative_684368..684598_POSITIVE 272 150 101 138 86 NC_009009:SSA_1969|5end_Acetolactate_synthase_small_subunit,_putative_1965222..1965452_NEGATIVE 268 44 2 96 46 NC_009009:SSA_1525|5end_Lyzozyme_M1_(1,4-beta-N-acetylmuramidase),_putative_1532746..1532976_POSITIVE 264 119 74 172 119 NC_009009:SSA_1368|5end_hypothetical_protein_1384077..1384307_NEGATIVE 264 50 3 215 167 NC_009009:SSA_1013|5end_Phosphatidylserine_synthase,_putative_1017221..1017451_POSITIVE 262 48 4 218 171 NC_009009:SSA_1903|5end_hypothetical_protein_1898182..1898412_NEGATIVE 262 42 3 68 24 NC_009009:SSA_1023|5end_Von_Willebrand_factor-binding_protein_precursor,_putative_1038411..1038641_POSITIVE 260 53 13 171 137 NC_009009:SSA_2099|5end_ABC-type_arginine/histidine_transporter,_permease_protein,_putative_2104313..2104543_NEGATIVE 260 59 17 208 159 NC_009009:SSA_1059|5end_hypothetical_protein_1076153..1076383_POSITIVE 259 107 62 115 71 NC_009009:SSA_0866|5end_Cation-transporting_ATPase,_E1-E_2_family,_putative_856983..857213_POSITIVE 253 78 43 163 129 NC_009009:SSA_0632|5end_Anthranilate_synthase_component_I,_putative_621458..621688_POSITIVE 250 48 4 55 8 NC_009009:SSA_2164|5end_Glutamine_amidotransferase,_putative_2161555..2161785_NEGATIVE 249 120 72 48 9 NC_009009:SSA_0638|5end_Tryptophan_synthase_alpha_chain,_putative_626935..627165_POSITIVE 248 47 1 190 138 NC_009009:SSA_1544|5end_Conserved_uncharacterized_protein_1548796..1549026_NEGATIVE 248 120 72 226 180 NC_009009:SSA_0139|5end_Copper_transport_operon_or_penicillinase_transcriptional_repressor,_putative_134183..134413_POSITIVE 248 80 36 218 182 NC_009009:SSA_0056|5end_Phosphotransferase_system_sugar-specific_EIID_component,_putative_59926..60156_POSITIVE 247 57 29 178 149 NC_009009:SSA_1207|5end_Phosphate_acetyltransferase,_putative_1232274..1232504_NEGATIVE 244 138 94 119 80 NC_009009:SSA_2137|5end_hypothetical_protein_2138412..2138642_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 307 124 94 82 53 NC_009009:SSA_1980|3end_50S_ribosomal_protein_L28,_putative_1974444..1974594_NEGATIVE 272 150 101 145 93 NC_009009:SSA_1970|3end_Acetolactate_synthase,_large_subunit,_biosynthetic_type,_putative_1965215..1965365_NEGATIVE 264 119 74 107 54 NC_009009:SSA_1369|3end_FmtA-like_protein,_putative_1384142..1384292_NEGATIVE 263 130 89 82 37 NC_009009:SSA_0427|3end_DNA-binding_transcriptional_activator,_SARP_family,_putative_427615..427765_POSITIVE 262 42 3 55 11 NC_009009:SSA_1022|3end_Glycosyl_transferase,_group_1,_putative_1038478..1038628_POSITIVE 249 120 72 55 16 NC_009009:SSA_0637|3end_Tryptophan_synthase_beta_chain,_putative_627022..627172_POSITIVE 248 120 72 78 32 NC_009009:SSA_0138|3end_Metal-binding_(Zn)_permease,_putative_134115..134265_POSITIVE 245 56 11 84 31 NC_009009:SSA_1259|3end_Purine_nucleoside_phosphorylase,_putative_1284910..1285060_NEGATIVE 244 138 94 69 30 NC_009009:SSA_2138|3end_RNA-binding_protein,_Jag_family,_putative_2138462..2138612_NEGATIVE 237 53 13 126 77 NC_009009:SSA_0492|3end_NADH-dependent_flavin_oxidoreductase,_putative_492771..492921_POSITIVE 231 57 13 118 52 NC_009009:SSA_0641|3end_hypothetical_protein_629427..629577_POSITIVE 228 138 94 104 55 NC_009009:SSA_2005|3end_Chaperone_protein_dnaJ,_putative_2005251..2005401_NEGATIVE 228 57 13 143 99 NC_009009:SSA_1664|3end_Phosphatidylethanolamine_N-methyltransferase,_putative_1664449..1664599_NEGATIVE 228 55 14 131 85 NC_009009:SSA_0779|3end_Glycogen_phosphorylase,_putative_764685..764835_POSITIVE 227 58 17 55 16 NC_009009:SSA_2206|3end_hypothetical_protein_2207275..2207425_POSITIVE 227 53 12 141 96 NC_009009:SSA_2161|3end_NTP_pyrophosphohydrolases_including_oxidative_damage_repair_enzymes,_putative_2160151..2160301_NEGATIVE 227 117 74 59 17 NC_009009:SSA_1588|3end_Conserved_ABC-type_antimicrobial_permease-like_protein,_putative_1589182..1589332_NEGATIVE 225 80 35 57 8 NC_009009:SSA_2347|3end_Coenzyme_F390_synthetase,_putative_2348647..2348797_NEGATIVE 225 118 80 74 44 NC_009009:SSA_0671|3end_Methylenetetrahydrofolate_dehydrogenase/methenyltetrahydrofolate_cyclohydrolase,_putative_655274..655424_POSITIVE 224 57 14 43 4 NC_009009:SSA_2184|3end_hypothetical_protein_2183284..2183434_NEGATIVE