Origin IGS: aatttatcctttcaacgaatatcattgataaaattttatatctttaactattttaacatatttctaggatttaagcgggtgaatcctaaagtgatactctctacctcaagagcaaaaaaagccctagcgggctttctaact .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 agttagaaagcccgctagggctttttttgctcttgaggtagagagtatcactttaggattcacccgcttaaatcctagaaatatgttaaaatagttaaagatataaaattttatcaatgatattcgttgaaaggataaatt Mask Tandem Repeat Region ================================================ aatttatcctttcaacgaatatcattgataaaattttatatctttaactattttaacatatttctaggatttaagcgggtgaatcctaaagtgatactctctacctcaagagcaaaaaaagccctagcgggctttctaact Find is-nt database================================================ Query_seq: SSA_1189:SSA_1190|SSA_1189:SSA_1190:GTP-binding protein, putative:Conserved uncharacterized protein:<-<-:1217748..1217888 141 aatttatcctttcaacgaatatcattgataaaattttatatctttaactattttaacatatttctaggatttaagcgggtgaatcctaaagtgatactctctacctcaagagcaaaaaaagccctagcgggctttctaact Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SSA_1189:SSA_1190|SSA_1189:SSA_1190:GTP-binding protein, putative:Conserved uncharacterized protein:<-<-:1217748..1217888 141 aatttatcctttcaacgaatatcattgataaaattttatatctttaactattttaacatatttctaggatttaagcgggtgaatcctaaagtgatactctctacctcaagagcaaaaaaagccctagcgggctttctaact Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SSA_1189:SSA_1190|SSA_1189:SSA_1190:GTP-binding protein, putative:Conserved uncharacterized protein:<-<-:1217748..1217888 141 aatttatcctttcaacgaatatcattgataaaattttatatctttaactattttaacatatttctaggatttaagcgggtgaatcctaaagtgatactctctacctcaagagcaaaaaaagccctagcgggctttctaact Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aatttatcctttcaacgaatatcattgataaaattttatatctttaactattttaacatatttctaggatttaagcgggtgaatcctaaagtgatactctctacctcaagagcaaaaaaagccctagcgggctttctaact Predict ORF larger than 30AA ================================================ Protein_Len: 41 Strand: + Start: 19 End: 141 .................. M S L I K F Y I F N Y F N I F L G F K R V N P K V I L S T S R A K K A L A G F L T aatttatcctttcaacgaatatcattgataaaattttatatctttaactattttaacatatttctaggatttaagcgggtgaatcctaaagtgatactctctacctcaagagcaaaaaaagccctagcgggctttctaact 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================================================ aatttatcctttcaacgaatatcattgataaaattttatatctttaactattttaacatatttctaggatttaagcgggtgaatcctaaagtgatactctctacctcaagagcaaaaaaagccctagcgggctttctaact Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SSA_1189:SSA_1190|SSA_1189:SSA_1190:GTP-binding protein, putative:Conserved uncharacterized protein:<-<-:1217748..1217888 141 aatttatcctttcaacgaatatcattgataaaattttatatctttaactattttaacatatttctaggatttaagcgggtgaatcctaaagtgatactctctacctcaagagcaaaaaaagccctagcgggctttctaact Intra-Species Hit: Count: 1 Min: 1 Max: 141 Len: 141 Subject: NC_009009_SSA_1189_SSA_1190|GTP-binding protein, putative:Conserved uncharacterized protein|NEGATIVE:NEGATIVE|[1217748,1217888]|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 aatttatcctttcaacgaatatcattgataaaattttatatctttaactattttaacatatttctaggatttaagcgggtgaatcctaaagtgatactctctacctcaagagcnnnnnnngccctagcgggctttctaact aatttatcctttcaacgaatatcattgataaaattttatatctttaactattttaacatatttctaggatttaagcgggtgaatcctaaagtgatactctctacctcaagagcaaaaaaagccctagcgggctttctaact Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUUUAUCCUUUCAACGAAUAUCAUUGAUAAAAUUUUAUAUCUUUAACUAUUUUAACAUAUUUCUAGGAUUUAAGCGGGUGAAUCCUAAAGUGAUACUCUCUACCUCAAGAGCAAAAAAAGCCCUAGCGGGCUUUCUAACU ...................(((((((..((((((.(((......)))..)))))).........(((((((((......))))))))).)))))))..((((......)))).....(((((((....)))))))...... (-26.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGUUAGAAAGCCCGCUAGGGCUUUUUUUGCUCUUGAGGUAGAGAGUAUCACUUUAGGAUUCACCCGCUUAAAUCCUAGAAAUAUGUUAAAAUAGUUAAAGAUAUAAAAUUUUAUCAAUGAUAUUCGUUGAAAGGAUAAAUU ....(((((((((....))))))))).(((((((......)))))))....(((((((((..........)))))))))..((((((............))))))..(((((.((((((.....)))))).)))))..... (-33.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 940 140 91 231 182 NC_009009:SSA_1189|5end_GTP-binding_protein,_putative_1217657..1217887_NEGATIVE 329 135 91 115 59 NC_009009:SSA_1264|5end_hypothetical_protein_1290042..1290272_NEGATIVE 321 137 98 139 91 NC_009009:SSA_1031|5end_DNA_topology_modulation_protein_FlaR,_putative_1048255..1048485_NEGATIVE 280 115 77 143 111 NC_009009:SSA_1051|5end_Spermidine/putrescine_ABC_transporter,_spermidine/putrescine-binding_protein,_putative_1065658..1065888_POSITIVE 274 133 94 126 90 NC_009009:SSA_0582|5end_Methylase,_putative_573769..573999_POSITIVE 273 125 93 63 27 NC_009009:SSA_0482|5end_ATP:cobalamin_adenosyl_transferase,_putative_483458..483688_POSITIVE 271 135 111 131 103 NC_009009:SSA_2002|5end_tRNA_pseudouridine_synthase_A,_putative_1998959..1999189_NEGATIVE 269 137 94 52 2 NC_009009:SSA_0452|5end_Nitrogen_utilization_substance_protein_B,_putative_451534..451764_POSITIVE 267 133 104 230 201 NC_009009:SSA_0331|5end_C3-degrading_proteinase,_putative_325178..325408_POSITIVE 265 133 109 40 9 NC_009009:SSA_0963|5end_Peptidoglycan_N-acetylglucosamine_deacetylase_A,_putative_971413..971643_POSITIVE 264 114 72 112 68 NC_009009:SSA_2234|5end_Phosphatidylserine/phosphatidylglycerophosphate/_cardiolipin_synthase,_phospholipase_D_family,_putative_2234776..2235006_NEGATIVE 260 110 62 64 21 NC_009009:SSA_2203|5end_30S_ribosomal_protein_S2,_putative_2204205..2204435_NEGATIVE 260 114 74 90 52 NC_009009:SSA_1578|5end_ABC-type_Fe3+-siderophore_transport_system,_permease_component,_putative_1581803..1582033_POSITIVE 256 136 100 67 18 NC_009009:SSA_1779|5end_Segregation_and_condensation_protein_A,_putative_1766414..1766644_NEGATIVE 253 133 92 166 127 NC_009009:SSA_2004|5end_Zinc_metalloprotease_zmpB_precursor,_putative_2004930..2005160_NEGATIVE 252 132 102 172 142 NC_009009:SSA_0244|5end_hypothetical_protein_238698..238928_POSITIVE 250 133 97 47 18 NC_009009:SSA_0629|5end_hypothetical_protein_618967..619197_POSITIVE 249 132 95 61 19 NC_009009:SSA_0782|5end_Proton-translocating_ATPase,_F0_sector,_subunit_c,_putative_766579..766809_POSITIVE 247 125 83 63 20 NC_009009:SSA_0513|5end_ATP:cob(I)alamin_adenosyltransferase,_putative_511558..511788_POSITIVE 246 108 64 53 4 NC_009009:SSA_1605|5end_Major_facilitator_superfamily_multi-drug_resistance_efflux_pump_pmrA,_putative_1611732..1611962_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 321 137 98 81 33 NC_009009:SSA_1032|3end_30S_ribosomal_protein_subunit_S20,_putative_1048313..1048463_NEGATIVE 280 115 77 146 114 NC_009009:SSA_1050|3end_ABC_transporter_membrane-spanning_permease-spermidine/putrescine_transport,_putative_1065741..1065891_POSITIVE 277 133 91 60 1 NC_009009:SSA_1593|3end_Dipeptidase,_putative_1596390..1596540_NEGATIVE 274 133 94 51 15 NC_009009:SSA_0581|3end_Conserved_uncharacterized_protein_573774..573924_POSITIVE 273 125 93 66 30 NC_009009:SSA_0481|3end_Cobyric_acid_synthase,_putative_483541..483691_POSITIVE 269 137 94 74 24 NC_009009:SSA_0451|3end_Conserved_uncharacterized_protein_451636..451786_POSITIVE 267 133 104 134 105 NC_009009:SSA_0330|3end_hypothetical_protein_325162..325312_POSITIVE 256 136 100 65 16 NC_009009:SSA_1780|3end_Tyrosine_recombinase_xerD,_putative_1766416..1766566_NEGATIVE 254 134 106 73 36 NC_009009:SSA_0144|3end_Transcriptional_regulator,_TetR_family,_putative_137993..138143_NEGATIVE 250 133 97 60 31 NC_009009:SSA_0628|3end_Fe-S-cluster_redox_enzyme/radical_SAM_enzyme,_Cfr_family,_putative_619060..619210_POSITIVE 248 138 92 93 36 NC_009009:SSA_1944|3end_Oligopeptide_transport_ATP-binding_protein,_putative_1935685..1935835_NEGATIVE 247 125 83 50 7 NC_009009:SSA_0512|3end_Nicotinate-nucleotide--dimethylbenzimidazole_phosphoribosyltransferase,_putative_511625..511775_POSITIVE 245 140 100 82 39 NC_009009:SSA_0987|3end_ABC-type_choline_transporter,_membrane-spanning_permease,_putative_990594..990744_POSITIVE 245 133 103 46 20 NC_009009:SSA_0757|3end_N-acetyl-gamma-glutamyl-phosphate_reductase,_putative_740698..740848_POSITIVE 241 128 83 71 21 NC_009009:SSA_1796|3end_Transcription_elongation_factor_GreA,_putative_1777825..1777975_NEGATIVE 239 133 106 80 55 NC_009009:SSA_2074|3end_Preprotein_translocase_subunit_YajC,_putative_2076600..2076750_NEGATIVE 239 110 62 51 4 NC_009009:SSA_1307|3end_Trk_transporter_membrane-spanning_protein-K+_transport,_putative_1324921..1325071_NEGATIVE 237 113 75 112 77 NC_009009:SSA_1111|3end_Branched-chain_amino_acid_transport_system_II_carrier_protein,_putative_1137940..1138090_POSITIVE 235 140 104 52 21 NC_009009:SSA_1079|3end_hypothetical_protein_1097448..1097598_POSITIVE 229 138 96 140 86 NC_009009:SSA_2082|3end_Carbohydrate_kinase,_FGGY_family,_putative_2085351..2085501_NEGATIVE