Origin IGS: acttttaataaaaaaaaacagtctatatactatattgaattaataaataaaaaccttctcacttttatttataagcaaattatgttataatgtactaaatttgtttataaaaattataagacttttatattaggaggaaaat .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 attttcctcctaatataaaagtcttataatttttataaacaaatttagtacattataacataatttgcttataaataaaagtgagaaggtttttatttattaattcaatatagtatatagactgtttttttttattaaaagt Mask Tandem Repeat Region ================================================ acttttaataaaaaaaaacagtctatatactatattgaattaataaataaaaaccttctcacttttatttataagcaaattatgttataatgtactaaatttgtttataaaaattataagacttttatattaggaggaaaat Find is-nt database================================================ Query_seq: FN0474:FN0475|FN0474:FN0475:Acriflavin resistance protein B:MIAB protein:->->:1122118..1122259 142 acttttaataaaaaaaaacagtctatatactatattgaattaataaataaaaaccttctcacttttatttataagcaaattatgttataatgtactaaatttgtttataaaaattataagacttttatattaggaggaaaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN0474:FN0475|FN0474:FN0475:Acriflavin resistance protein B:MIAB protein:->->:1122118..1122259 142 acttttaataaaaaaaaacagtctatatactatattgaattaataaataaaaaccttctcacttttatttataagcaaattatgttataatgtactaaatttgtttataaaaattataagacttttatattaggaggaaaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN0474:FN0475|FN0474:FN0475:Acriflavin resistance protein B:MIAB protein:->->:1122118..1122259 142 acttttaataaaaaaaaacagtctatatactatattgaattaataaataaaaaccttctcacttttatttataagcaaattatgttataatgtactaaatttgtttataaaaattataagacttttatattaggaggaaaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 acttttaataaaaaaaaacagtctatatactatattgaattaataaataaaaaccttctcacttttatttataagcaaattatgttataatgtactaaatttgtttataaaaattataagacttttatattaggaggaaaat Predict ORF larger than 30AA ================================================ acttttaataaaaaaaaacagtctatatactatattgaattaataaataaaaaccttctcacttttatttataagcaaattatgttataatgtactaaatttgtttataaaaattataagacttttatattaggaggaaaat Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ PromScan Matrix: RpoD-17 Strand: + Score: 82 Start: 62 End: 91 .............................................................CTTTTATTTATAAGCAAATTATGTTATAAT................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ acttttaataaaaaaaaacagtctatatactatattgaattaataaataaaaaccttctcacttttatttataagcaaattatgttataatgtactaaatttgtttataaaaattataagacttttatattaggaggaaaat Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: FN0474:FN0475|FN0474:FN0475:Acriflavin resistance protein B:MIAB protein:->->:1122118..1122259 142 acttttaataaaaaaaaacagtctatatactatattgaattaataaataaaaaccttctcacttttatttataagcaaattatgttataatgtactaaatttgtttataaaaattataagacttttatattaggaggaaaat Intra-Species Hit: Count: 1 Min: 19 Max: 142 Len: 124 Subject: NC_003454_FN0474_FN0475|Acriflavin resistance protein B:MIAB protein|POSITIVE:POSITIVE|[1122118,1122259]|142 HSP 1 e-value: 2.0E-64 bit: 246.0 Len: 124 Query Start:19 Query End:142 Subject Strand: POSITIVE Subject Start: 19 Subject End: 142 ..................cagtctatatactatattgaattaataaataaaaaccttctcacttttatttataagcaaattatgttataatgtactaaatttgtttataaaaattataagacttttatattaggaggaaaat ..................cagtctatatactatattgaattaataaataaaaaccttctcacttttatttataagcaaattatgttataatgtactaaatttgtttataaaaattataagacttttatattaggaggaaaat Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CAGUCUAUAUACUAUAUUGAAUUAAUAAAUAAAAACCUUCUCACUUUUAUUUAUAAGCAAAUUAUGUUAUAAUGUACUAAAUUUGUUUAUAAAAAUUAUAAGACUUUUAUAUUAGGAGGAAAAU ...................................((((((........((((((((((((((..((........))..))))))))))))))...((((((...))))))..))))))..... (-17.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUUUCCUCCUAAUAUAAAAGUCUUAUAAUUUUUAUAAACAAAUUUAGUACAUUAUAACAUAAUUUGCUUAUAAAUAAAAGUGAGAAGGUUUUUAUUUAUUAAUUCAAUAUAGUAUAUAGACUG ...................(((((((((...(((((((.((((((..((........))..)))))).)))))))...((((((((....))))))))...............)))).))))). (-14.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 219 43 4 106 67 NC_003454:FN0836|5end_hypothetical_protein_1498802..1499032_POSITIVE 187 118 76 161 120 NC_003454:FN1655|5end_Hypothetical_cytosolic_protein_150898..151128_POSITIVE 186 118 71 209 159 NC_003454:FN0702|5end_N-acyl-L-amino_acid_amidohydrolase_1361002..1361232_NEGATIVE 180 73 32 133 95 NC_003454:FN1444|5end_GMP_synthase_[glutamine-hydrolyzing]_2111585..2111815_POSITIVE 173 41 1 104 64 NC_003454:FN0793|5end_Sodium/glutamate_symport_carrier_protein_1450512..1450742_POSITIVE 162 65 33 96 61 NC_003454:FN0087|5end_Ethanolamine_utilization_protein_eutN_724626..724856_POSITIVE 157 70 37 227 190 NC_003454:FN1241|5end_Hypohetical_Teichoic_Acid_Biosynthesis_Protein_1898512..1898742_NEGATIVE 153 59 12 80 35 NC_003454:FN1248|5end_Hypothetical_cytosolic_protein_1905214..1905444_NEGATIVE 153 57 34 177 154 NC_003454:FN0045|5end_Shikimate_5-dehydrogenase_683012..683242_POSITIVE 153 118 73 186 140 NC_003454:FN2063|5end_hypothetical_protein_575019..575249_NEGATIVE 152 58 26 57 16 NC_003454:FN1936|5end_hypothetical_protein_437732..437962_NEGATIVE 151 69 35 137 101 NC_003454:FN1625|5end_LSU_ribosomal_protein_L15P_132864..133094_NEGATIVE 150 88 45 160 111 NC_003454:FN0147|5end_fatty_acid/phospholipid_synthesis_protein_775462..775692_POSITIVE 149 119 89 213 187 NC_003454:FN1133|5end_N-acetylglucosamine-6-phosphate_deacetylase_1781429..1781659_NEGATIVE 146 119 81 40 9 NC_003454:FN0566|5end_Hypothetical_exported_24-amino_acid_repeat_protein_1218482..1218712_NEGATIVE 146 79 40 130 87 NC_003454:FN0113|5end_Heat-inducible_transcription_repressor_hrcA_746557..746787_POSITIVE 144 80 36 61 18 NC_003454:FN0481|5end_hypothetical_protein_1127777..1128007_POSITIVE 143 80 35 71 34 NC_003454:FN1458|5end_UDP-N-acetylmuramoylalanine--D-glutamate_ligase_2140341..2140571_NEGATIVE 143 46 2 125 84 NC_003454:FN0921|5end_hypothetical_protein_1576482..1576712_NEGATIVE 143 50 1 97 53 NC_003454:FN0525|5end_Penicillin-binding_protein_1181840..1182070_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 219 43 4 89 50 NC_003454:FN0835|3end_hypothetical_protein_1498865..1499015_POSITIVE 186 118 71 143 93 NC_003454:FN0703|3end_N-acyl-L-amino_acid_amidohydrolase_1361068..1361218_NEGATIVE 171 70 30 123 84 NC_003454:FN1476|3end_N-acetylmannosamine-6-phosphate_2-epimerase_2159426..2159576_POSITIVE 165 60 17 104 56 NC_003454:FN0736|3end_Methyltransferase_1394658..1394808_NEGATIVE 162 65 33 94 59 NC_003454:FN0086|3end_hypothetical_protein_724704..724854_POSITIVE 158 114 71 98 58 NC_003454:FN0671|3end_High-affinity_zinc_uptake_system_membrane_protein_znuB_1327538..1327688_POSITIVE 153 57 34 126 103 NC_003454:FN0044|3end_Shikimate_5-dehydrogenase_683041..683191_POSITIVE 152 58 26 84 43 NC_003454:FN1937|3end_hypothetical_protein_437705..437855_NEGATIVE 151 69 35 137 101 NC_003454:FN1626|3end_LSU_ribosomal_protein_L30P_132864..133014_NEGATIVE 146 79 40 93 50 NC_003454:FN0112|3end_hypothetical_protein_746600..746750_POSITIVE 143 80 35 137 100 NC_003454:FN1459|3end_Phospho-N-acetylmuramoyl-pentapeptide-_transferase_2140275..2140425_NEGATIVE 142 70 38 71 29 NC_003454:FN1608|3end_Ribosomal_protein_L11_methyltransferase_117909..118059_NEGATIVE 140 110 64 69 14 NC_003454:FN1134|3end_Hypothetical_cytosolic_protein_1782042..1782192_POSITIVE 139 69 37 133 104 NC_003454:FN1393|3end_Signal_recognition_particle,_subunit_FFH/SRP54_2049510..2049660_NEGATIVE 139 117 82 100 72 NC_003454:FN0164|3end_Anhydro-N-acetylmuramyl-tripeptide_amidase_793291..793441_POSITIVE 138 79 35 65 30 NC_003454:FN1700|3end_hypothetical_protein_195245..195395_NEGATIVE 137 72 36 121 84 NC_003454:FN0979|3end_hypothetical_protein_1632544..1632694_POSITIVE 137 97 61 67 31 NC_003454:FN1861|3end_L-lysine_permease_351685..351835_NEGATIVE 136 71 32 50 14 NC_003454:FN2079|3end_ABC_transporter_ATP-binding_protein_590342..590492_NEGATIVE 136 99 51 75 34 NC_003454:FN1727|3end_Chloride_channel_protein_226062..226212_NEGATIVE