Origin IGS: cttttttatcattatttatcaactcctttttttagatttcttagatagttatttatatctactgttattaaagtttttgtactattttttctaatatagagttgtgcttcttattttgaactatatacatactactaagcctattttatacgcattctaattcaaatattttttgaataa .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ttattcaaaaaatatttgaattagaatgcgtataaaataggcttagtagtatgtatatagttcaaaataagaagcacaactctatattagaaaaaatagtacaaaaactttaataacagtagatataaataactatctaagaaatctaaaaaaaggagttgataaataatgataaaaaag Mask Tandem Repeat Region ================================================ cttttttatcattatttatcaactcctttttttagatttcttagatagttatttatatctactgttattaaagtttttgtactattttttctaatatagagttgtgcttcttattttgaactatatacatactactaagcctattttatacgcattctaattcaaatattttttgaataa Find is-nt database================================================ Query_seq: FN2114:FN2115|FN2114:FN2115:hypothetical protein:hypothetical protein:<-<-:624298..624477 180 cttttttatcattatttatcaactcctttttttagatttcttagatagttatttatatctactgttattaaagtttttgtactattttttctaatatagagttgtgcttcttattttgaactatatacatactactaagcctattttatacgcattctaattcaaatattttttgaataa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN2114:FN2115|FN2114:FN2115:hypothetical protein:hypothetical protein:<-<-:624298..624477 180 cttttttatcattatttatcaactcctttttttagatttcttagatagttatttatatctactgttattaaagtttttgtactattttttctaatatagagttgtgcttcttattttgaactatatacatactactaagcctattttatacgcattctaattcaaatattttttgaataa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN2114:FN2115|FN2114:FN2115:hypothetical protein:hypothetical protein:<-<-:624298..624477 180 cttttttatcattatttatcaactcctttttttagatttcttagatagttatttatatctactgttattaaagtttttgtactattttttctaatatagagttgtgcttcttattttgaactatatacatactactaagcctattttatacgcattctaattcaaatattttttgaataa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 cttttttatcattatttatcaactcctttttttagatttcttagatagttatttatatctactgttattaaagtttttgtactattttttctaatatagagttgtgcttcttattttgaactatatacatactactaagcctattttatacgcattctaattcaaatattttttgaataa Predict ORF larger than 30AA ================================================ cttttttatcattatttatcaactcctttttttagatttcttagatagttatttatatctactgttattaaagtttttgtactattttttctaatatagagttgtgcttcttattttgaactatatacatactactaagcctattttatacgcattctaattcaaatattttttgaataa 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================================================ cttttttatcattatttatcaactcctttttttagatttcttagatagttatttatatctactgttattaaagtttttgtactattttttctaatatagagttgtgcttcttattttgaactatatacatactactaagcctattttatacgcattctaattcaaatattttttgaataa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: FN2114:FN2115|FN2114:FN2115:hypothetical protein:hypothetical protein:<-<-:624298..624477 180 cttttttatcattatttatcaactcctttttttagatttcttagatagttatttatatctactgttattaaagtttttgtactattttttctaatatagagttgtgcttcttattttgaactatatacatactactaagcctattttatacgcattctaattcaaatattttttgaataa Intra-Species Hit: Count: 1 Min: 1 Max: 180 Len: 180 Subject: NC_003454_FN2114_FN2115|hypothetical protein:hypothetical protein|NEGATIVE:NEGATIVE|[624298,624477]|180 HSP 1 e-value: 4.0E-44 bit: 178.0 Len: 90 Query Start:91 Query End:180 Subject Strand: POSITIVE Subject Start: 91 Subject End: 180 ..........................................................................................ctaatatagagttgtgcttcttattttgaactatatacatactactaagcctattttatacgcattctaattcaaatattttttgaataa ..........................................................................................ctaatatagagttgtgcttcttattttgaactatatacatactactaagcctattttatacgcattctaattcaaatattttttgaataa HSP 2 e-value: 6.0E-6 bit: 52.0 Len: 26 Query Start:1 Query End:26 Subject Strand: POSITIVE Subject Start: 1 Subject End: 26 cttttttatcattatttatcaactcc.......................................................................................................................................................... cttttttatcattatttatcaactcc.......................................................................................................................................................... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUUUUUUAUCAUUAUUUAUCAACUCCUUUUUUUAGAUUUCUUAGAUAGUUAUUUAUAUCUACUGUUAUUAAAGUUUUUGUACUAUUUUUUCUAAUAUAGAGUUGUGCUUCUUAUUUUGAACUAUAUACAUACUACUAAGCCUAUUUUAUACGCAUUCUAAUUCAAAUAUUUUUUGAAUAA ........(((..((....((((((..(...(((((......(((((((.....(((...(((........)))...))))))))))..))))).)..))))))........))..)))...................((.(((...))).))......(((((((.....))))))).. (-18.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUAUUCAAAAAAUAUUUGAAUUAGAAUGCGUAUAAAAUAGGCUUAGUAGUAUGUAUAUAGUUCAAAAUAAGAAGCACAACUCUAUAUUAGAAAAAAUAGUACAAAAACUUUAAUAACAGUAGAUAUAAAUAACUAUCUAAGAAAUCUAAAAAAAGGAGUUGAUAAAUAAUGAUAAAAAAG ....(((.......(((((((((..((((((((...............)))))))).)))))))))..........(((((((...(((((......(((......)))..........((((((........)))))).....))))).....)))))))........)))........ (-27.06) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 748 140 91 231 182 NC_003454:FN2114|5end_hypothetical_protein_624207..624437_NEGATIVE 291 50 5 132 84 NC_003454:FN2009|5end_Glycine_betaine_transport_system_permease_protein_509860..510090_NEGATIVE 274 70 21 184 132 NC_003454:FN1343|5end_seC-independent_protein_TATD_1997232..1997462_NEGATIVE 265 150 107 149 100 NC_003454:FN0149|5end_Malonyl-CoA-[acyl-carrier-protein]_transacylase_777486..777716_POSITIVE 239 163 129 202 163 NC_003454:FN2122|5end_Phenylalanyl-tRNA_synthetase_beta_chain_632194..632424_NEGATIVE 219 70 23 179 117 NC_003454:FN0199|5end_hypothetical_protein_825783..826013_POSITIVE 218 87 41 225 174 NC_003454:FN0417|5end_Type_III_restriction-modification_system_restriction_subunit_1055887..1056117_POSITIVE 218 143 105 81 38 NC_003454:FN1842|5end_Dihydroxyacetone_kinase_phosphotransfer_protein_331491..331721_POSITIVE 217 70 23 164 118 NC_003454:FN1276|5end_hypothetical_protein_1934805..1935035_POSITIVE 214 98 60 150 117 NC_003454:FN1366|5end_Triosephosphate_isomerase_2017518..2017748_NEGATIVE 214 60 18 71 32 NC_003454:FN1235|5end_Ankyrin_repeat_proteins_1890915..1891145_POSITIVE 213 148 101 104 62 NC_003454:FN2018|5end_Single-stranded-DNA-specific_exonuclease_recJ_521927..522157_NEGATIVE 206 38 3 112 70 NC_003454:FN0307|5end_Iron(III)_dicitrate_transport_ATP-binding_protein_fecE_942095..942325_POSITIVE 206 116 73 93 57 NC_003454:FN2044|5end_LSU_ribosomal_protein_L33P_550109..550339_NEGATIVE 205 112 78 66 29 NC_003454:FN0383|5end_Lipopolysaccharide_N-acetylglucosaminyltransferase_1014148..1014378_POSITIVE 201 69 22 84 19 NC_003454:FN0651|5end_Ribosomal_large_subunit_pseudouridine_synthase_D_1309314..1309544_POSITIVE 201 50 1 184 137 NC_003454:FN0560|5end_Oxygen-independent_coproporphyrinogen_III_oxidase_1213042..1213272_POSITIVE 199 87 41 187 146 NC_003454:FN1487|5end_hypothetical_protein_2170020..2170250_NEGATIVE 198 50 2 120 73 NC_003454:FN1324|5end_1-deoxy-D-xylulose_5-phosphate_reductoisomerase_1980312..1980542_NEGATIVE 198 89 45 175 131 NC_003454:FN0290|5end_Hemolysin_918997..919227_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 265 150 107 109 60 NC_003454:FN0148|3end_3-oxoacyl-(acyl_carrier_protein)_synthase_777526..777676_POSITIVE 219 70 23 139 77 NC_003454:FN0198|3end_Transcriptional_regulatory_protein_825823..825973_POSITIVE 218 143 105 77 34 NC_003454:FN1841|3end_Dihydroxyacetone_kinase_331567..331717_POSITIVE 217 70 23 146 100 NC_003454:FN1275|3end_Acriflavin_resistance_protein_B_1934867..1935017_POSITIVE 214 98 60 130 97 NC_003454:FN1367|3end_Methyl-accepting_chemotaxis_protein_2017538..2017688_NEGATIVE 213 148 101 101 59 NC_003454:FN2019|3end_Ribosome-binding_factor_A_521930..522080_NEGATIVE 209 48 1 134 77 NC_003454:FN1815|3end_Transposase_295626..295776_NEGATIVE 206 38 3 118 76 NC_003454:FN0306|3end_Iron(III)_dicitrate_transport_system_permease_protein_fecD_942181..942331_POSITIVE 205 112 78 62 25 NC_003454:FN0382|3end_hypothetical_protein_1014224..1014374_POSITIVE 204 49 11 74 37 NC_003454:FN1448|3end_Hypothetical_cytosolic_protein_2117403..2117553_NEGATIVE 202 45 9 138 101 NC_003454:FN1292|3end_hypothetical_protein_1949443..1949593_NEGATIVE 202 33 5 149 124 NC_003454:FN2010|3end_Transcriptional_regulator,_MarR_family_509820..509970_NEGATIVE 199 69 23 79 21 NC_003454:FN2013|3end_GTP-binding_protein_514068..514218_NEGATIVE 198 50 2 111 64 NC_003454:FN1325|3end_Phosphatidate_cytidylyltransferase_1980321..1980471_NEGATIVE 198 110 65 57 15 NC_003454:FN1850|3end_3-oxoacyl-[acyl-carrier-protein]_synthase_III_340214..340364_POSITIVE 196 114 83 147 118 NC_003454:FN1321|3end_Acetoacetate_metabolism_regulatory_protein_atoC_1975981..1976131_NEGATIVE 196 148 108 89 42 NC_003454:FN0055|3end_Ribosomal-protein-alanine_acetyltransferase_692744..692894_POSITIVE 195 28 5 105 84 NC_003454:FN0987|3end_Amidophosphoribosyltransferase_1638864..1639014_NEGATIVE 194 99 53 119 82 NC_003454:FN0871|3end_3-dehydroquinate_synthase_1529773..1529923_NEGATIVE 194 50 1 127 78 NC_003454:FN0715|3end_hypothetical_protein_1374056..1374206_POSITIVE