Origin IGS: attaaactccttcttgtcagacttggggctgctcaatagctaggtaaactgccaaagcacttcagcctctgattcatatgtttttccacttggagcattc .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 gaatgctccaagtggaaaaacatatgaatcagaggctgaagtgctttggcagtttacctagctattgagcagccccaagtctgacaagaaggagtttaat Mask Tandem Repeat Region ================================================ attaaactccttcttgtcagacttggggctgctcaatagctaggtaaactgccaaagcacttcagcctctgattcatatgtttttccacttggagcattc Find is-nt database================================================ Query_seq: SSA_2346:SSA_2347|SSA_2346:SSA_2347:3-oxoacyl-[acyl-carrier-protein] synthase III, putative:Coenzyme F390 synthetase, putative:<-<-:2348637..2348736 100 attaaactccttcttgtcagacttggggctgctcaatagctaggtaaactgccaaagcacttcagcctctgattcatatgtttttccacttggagcattc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SSA_2346:SSA_2347|SSA_2346:SSA_2347:3-oxoacyl-[acyl-carrier-protein] synthase III, putative:Coenzyme F390 synthetase, putative:<-<-:2348637..2348736 100 attaaactccttcttgtcagacttggggctgctcaatagctaggtaaactgccaaagcacttcagcctctgattcatatgtttttccacttggagcattc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SSA_2346:SSA_2347|SSA_2346:SSA_2347:3-oxoacyl-[acyl-carrier-protein] synthase III, putative:Coenzyme F390 synthetase, putative:<-<-:2348637..2348736 100 attaaactccttcttgtcagacttggggctgctcaatagctaggtaaactgccaaagcacttcagcctctgattcatatgtttttccacttggagcattc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 attaaactccttcttgtcagacttggggctgctcaatagctaggtaaactgccaaagcacttcagcctctgattcatatgtttttccacttggagcattc Predict ORF larger than 30AA ================================================ attaaactccttcttgtcagacttggggctgctcaatagctaggtaaactgccaaagcacttcagcctctgattcatatgtttttccacttggagcattc 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================================================ attaaactccttcttgtcagacttggggctgctcaatagctaggtaaactgccaaagcacttcagcctctgattcatatgtttttccacttggagcattc Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SSA_2346:SSA_2347|SSA_2346:SSA_2347:3-oxoacyl-[acyl-carrier-protein] synthase III, putative:Coenzyme F390 synthetase, putative:<-<-:2348637..2348736 100 attaaactccttcttgtcagacttggggctgctcaatagctaggtaaactgccaaagcacttcagcctctgattcatatgtttttccacttggagcattc Intra-Species Hit: Count: 1 Min: 1 Max: 100 Len: 100 Subject: NC_009009_SSA_2346_SSA_2347|3-oxoacyl-[acyl-carrier-protein] synthase III, putative:Coenzyme F390 synthetase, putative|NEGATIVE:NEGATIVE|[2348637,2348736]|100 HSP 1 e-value: 2.0E-50 bit: 198.0 Len: 100 Query Start:1 Query End:100 Subject Strand: POSITIVE Subject Start: 1 Subject End: 100 attaaactccttcttgtcagacttggggctgctcaatagctaggtaaactgccaaagcacttcagcctctgattcatatgtttttccacttggagcattc attaaactccttcttgtcagacttggggctgctcaatagctaggtaaactgccaaagcacttcagcctctgattcatatgtttttccacttggagcattc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUAAACUCCUUCUUGUCAGACUUGGGGCUGCUCAAUAGCUAGGUAAACUGCCAAAGCACUUCAGCCUCUGAUUCAUAUGUUUUUCCACUUGGAGCAUUC ......((((.....(..((((..(((((((.......(((.(((.....)))..)))....)))))))..........))))..).....))))..... (-19.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAAUGCUCCAAGUGGAAAAACAUAUGAAUCAGAGGCUGAAGUGCUUUGGCAGUUUACCUAGCUAUUGAGCAGCCCCAAGUCUGACAAGAAGGAGUUUAAU ....(((((..(((......))).....((((((((((.((((((..((.......)).))).)))...))))).....)))))......)))))..... (-25.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 1008 70 21 161 112 NC_009009:SSA_2346|5end_3-oxoacyl-[acyl-carrier-protein]_synthase_III,_putative_2348546..2348776_NEGATIVE 369 59 12 217 168 NC_009009:SSA_1840|5end_RNA_binding_protein,_putative_1834422..1834652_NEGATIVE 337 95 51 227 176 NC_009009:SSA_2122|5end_hypothetical_protein_2127607..2127837_NEGATIVE 328 66 22 44 2 NC_009009:SSA_1676|5end_Transcriptional_regulator,_LytTr_family,_putative_1671313..1671543_NEGATIVE 327 89 41 91 37 NC_009009:SSA_0129|5end_Translation_initiation_factor_IF-1,_putative_119957..120187_POSITIVE 325 60 11 52 8 NC_009009:SSA_1234|5end_5'-nucleotidase,_putative_1259795..1260025_NEGATIVE 324 66 26 59 22 NC_009009:SSA_0726|5end_FmtA-like_protein,_putative_710905..711135_POSITIVE 323 44 16 65 36 NC_009009:SSA_0498|5end_ABC-type_dipeptide/oligopeptide/nickel_transport_systems,_permease_components,_putative_497910..498140_POSITIVE 322 54 19 175 133 NC_009009:SSA_1842|5end_Two-component_response_transcriptional_regulator_(CheY-like_receiver_and_HTH_DNA-binding_domains),_putative_1836494..1836724_NEGATIVE 321 70 22 60 5 NC_009009:SSA_2053|5end_hypothetical_protein_2057747..2057977_NEGATIVE 318 69 21 49 15 NC_009009:SSA_0210|5end_hypothetical_protein_207757..207987_POSITIVE 316 58 12 198 156 NC_009009:SSA_0854|5end_hypothetical_protein_841335..841565_POSITIVE 311 67 23 210 157 NC_009009:SSA_1164|5end_hypothetical_protein_1191138..1191368_NEGATIVE 310 59 11 166 111 NC_009009:SSA_1323|5end_hypothetical_protein_1340450..1340680_NEGATIVE 309 53 15 37 1 NC_009009:SSA_1893|5end_N-acetylglucosamine-6-phosphate_deacetylase,_putative_1890572..1890802_NEGATIVE 309 69 24 106 58 NC_009009:SSA_0977|5end_3-isopropylmalate_dehydrogenase,_putative_982771..983001_POSITIVE 305 45 7 206 168 NC_009009:SSA_0140|5end_Copper-translocating_P-type_ATPase,_putative_134626..134856_POSITIVE 304 37 8 146 99 NC_009009:SSA_2173|5end_Aminoacylase/N-acyl-L-amino_acid_amidohydrolase/hippurate_hydrolase,_putative_2171914..2172144_NEGATIVE 303 67 22 219 161 NC_009009:SSA_1800|5end_UDP-N-acetylmuramate--L-alanine_ligase,_putative_1782371..1782601_NEGATIVE 301 53 14 59 19 NC_009009:SSA_1129|5end_Periplasmic_iron_transport_lipoprotein,_putative_1154925..1155155_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 323 44 16 72 43 NC_009009:SSA_0497|3end_Nickel_ABC_transporter,_putative_497997..498147_POSITIVE 308 70 22 73 21 NC_009009:SSA_0567|3end_Isochorismitase_family_protein,_putative_561442..561592_POSITIVE 308 44 4 135 88 NC_009009:SSA_0390|3end_hypothetical_protein_385714..385864_POSITIVE 304 37 8 69 22 NC_009009:SSA_2174|3end_2,3,4,5-tetrahydropyridine-2-carboxylate_N-succinyltransferase,_putative_2171991..2172141_NEGATIVE 301 59 16 78 23 NC_009009:SSA_0463|3end_Cobyrinic_acid_A,C-diamide_synthase,_putative_468303..468453_POSITIVE 297 44 5 63 14 NC_009009:SSA_2197|3end_hypothetical_protein_2197314..2197464_NEGATIVE 296 58 11 56 6 NC_009009:SSA_0899|3end_Conserved_permease,_putative_891161..891311_POSITIVE 296 44 7 147 80 NC_009009:SSA_0278|3end_Transcriptional_repressor_of_sugar_metabolism,_GlpR/DeoR_family,_putative_272382..272532_POSITIVE 295 70 22 46 4 NC_009009:SSA_0160|3end_hypothetical_protein_159519..159669_POSITIVE 293 69 21 139 90 NC_009009:SSA_2198|3end_hypothetical_protein_2197842..2197992_NEGATIVE 293 52 11 141 98 NC_009009:SSA_1053|3end_Pyruvate_phosphate_dikinase,_putative_1067447..1067597_NEGATIVE 292 53 13 50 6 NC_009009:SSA_0624|3end_hypothetical_protein_615698..615848_POSITIVE 286 58 16 132 101 NC_009009:SSA_1365|3end_FmtA-like_protein,_putative_1381352..1381502_NEGATIVE 285 69 24 58 1 NC_009009:SSA_1375|3end_Multidrug_ABC_transporter,_ATPase_and_permease_components,_putative_1393085..1393235_NEGATIVE 284 43 2 137 91 NC_009009:SSA_0454|3end_Lactose_operon_transcriptional_repressor,_LacI_family,_putative_456050..456200_NEGATIVE 283 52 11 134 98 NC_009009:SSA_1550|3end_hypothetical_protein_1552228..1552378_NEGATIVE 283 44 10 117 87 NC_009009:SSA_0952|3end_hypothetical_protein_958095..958245_POSITIVE 279 55 21 149 118 NC_009009:SSA_1396|3end_hypothetical_protein_1409790..1409940_NEGATIVE 278 71 33 146 108 NC_009009:SSA_2224|3end_Phosphotyrosine-protein_phosphatase,_putative_2224711..2224861_NEGATIVE 278 44 7 138 97 NC_009009:SSA_2131|3end_DNA-binding_protein,_putative_2134247..2134397_POSITIVE