Origin IGS: tgttaacccttccccttactattatttttactaataaaatctatcattattcaatctatgagagttaagaaaaaataagtgagttatattccagattttaggataaaaattaaataga .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tctatttaatttttatcctaaaatctggaatataactcacttattttttcttaactctcatagattgaataatgatagattttattagtaaaaataatagtaaggggaagggttaaca Mask Tandem Repeat Region ================================================ tgttaacccttccccttactattatttttactaataaaatctatcattattcaatctatgagagttaagaaaaaataagtgagttatattccagattttaggataaaaattaaataga Find is-nt database================================================ Query_seq: FN1459:FN1460|FN1459:FN1460:Phospho-N-acetylmuramoyl-pentapeptide- transferase:Hypothetical cytosolic protein:<-->:2141451..2141568 118 tgttaacccttccccttactattatttttactaataaaatctatcattattcaatctatgagagttaagaaaaaataagtgagttatattccagattttaggataaaaattaaataga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN1459:FN1460|FN1459:FN1460:Phospho-N-acetylmuramoyl-pentapeptide- transferase:Hypothetical cytosolic protein:<-->:2141451..2141568 118 tgttaacccttccccttactattatttttactaataaaatctatcattattcaatctatgagagttaagaaaaaataagtgagttatattccagattttaggataaaaattaaataga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN1459:FN1460|FN1459:FN1460:Phospho-N-acetylmuramoyl-pentapeptide- transferase:Hypothetical cytosolic protein:<-->:2141451..2141568 118 tgttaacccttccccttactattatttttactaataaaatctatcattattcaatctatgagagttaagaaaaaataagtgagttatattccagattttaggataaaaattaaataga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgttaacccttccccttactattatttttactaataaaatctatcattattcaatctatgagagttaagaaaaaataagtgagttatattccagattttaggataaaaattaaataga Predict ORF larger than 30AA ================================================ tgttaacccttccccttactattatttttactaataaaatctatcattattcaatctatgagagttaagaaaaaataagtgagttatattccagattttaggataaaaattaaataga 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================================================ tgttaacccttccccttactattatttttactaataaaatctatcattattcaatctatgagagttaagaaaaaataagtgagttatattccagattttaggataaaaattaaataga Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: FN1459:FN1460|FN1459:FN1460:Phospho-N-acetylmuramoyl-pentapeptide- transferase:Hypothetical cytosolic protein:<-->:2141451..2141568 118 tgttaacccttccccttactattatttttactaataaaatctatcattattcaatctatgagagttaagaaaaaataagtgagttatattccagattttaggataaaaattaaataga Intra-Species Hit: Count: 1 Min: 1 Max: 118 Len: 118 Subject: NC_003454_FN1459_FN1460|Phospho-N-acetylmuramoyl-pentapeptide- transferase:Hypothetical cytosolic protein|NEGATIVE:POSITIVE|[2141451,2141568]|118 HSP 1 e-value: 5.0E-61 bit: 234.0 Len: 118 Query Start:1 Query End:118 Subject Strand: POSITIVE Subject Start: 1 Subject End: 118 tgttaacccttccccttactattatttttactaataaaatctatcattattcaatctatgagagttaagaaaaaataagtgagttatattccagattttaggataaaaattaaataga tgttaacccttccccttactattatttttactaataaaatctatcattattcaatctatgagagttaagaaaaaataagtgagttatattccagattttaggataaaaattaaataga Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGUUAACCCUUCCCCUUACUAUUAUUUUUACUAAUAAAAUCUAUCAUUAUUCAAUCUAUGAGAGUUAAGAAAAAAUAAGUGAGUUAUAUUCCAGAUUUUAGGAUAAAAAUUAAAUAGA ..................((((((((((((....((((((((.((((((((...(((((....))..)))...))).)))))..........))))))))...)))))))..))))). (-12.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCUAUUUAAUUUUUAUCCUAAAAUCUGGAAUAUAACUCACUUAUUUUUUCUUAACUCUCAUAGAUUGAAUAAUGAUAGAUUUUAUUAGUAAAAAUAAUAGUAAGGGGAAGGGUUAACA .(((((..((((((((..(((((((((.........(((.((((((..(((..........)))..))))))))))))))))))...))))))))))))).................. (-16.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 700 50 1 141 92 NC_003454:FN1459|5end_Phospho-N-acetylmuramoyl-pentapeptide-_transferase_2141360..2141590_NEGATIVE 502 110 68 182 140 NC_003454:FN1835|5end_hypothetical_protein_323680..323910_NEGATIVE 499 110 71 195 156 NC_003454:FN0117|5end_O6-methylguanine-DNA_methyltransferase_750338..750568_POSITIVE 499 110 71 175 136 NC_003454:FN0085|5end_Ethanolamine_utilization_cobalamin_adenosyltransferase_723270..723500_POSITIVE 493 110 64 165 119 NC_003454:FN1822|5end_Flavodoxin_311148..311378_POSITIVE 493 110 64 48 2 NC_003454:FN1821|5end_Hypothetical_cytosolic_protein_311031..311261_POSITIVE 464 110 61 177 128 NC_003454:FN0392|5end_Oxygen-independent_coproporphyrinogen_III_oxidase_1029624..1029854_POSITIVE 451 110 71 163 124 NC_003454:FN2095|5end_General_secretion_pathway_protein_E_606080..606310_NEGATIVE 447 110 71 217 178 NC_003454:FN0484|5end_Lipase_1129470..1129700_POSITIVE 447 110 71 208 169 NC_003454:FN1808|5end_hypothetical_protein_289905..290135_NEGATIVE 437 110 68 165 125 NC_003454:FN1614|5end_MG(2+)_chelatase_family_protein_125002..125232_NEGATIVE 435 110 72 171 133 NC_003454:FN0906|5end_Glycerol-3-phosphate_dehydrogenase_[NAD(P)+]_1565131..1565361_NEGATIVE 415 110 61 182 131 NC_003454:FN1819|5end_Export_ABC_transporter_307519..307749_POSITIVE 382 103 63 160 121 NC_003454:FN0670|5end_High-affinity_zinc_uptake_system_membrane_protein_znuB_1325702..1325932_POSITIVE 378 109 70 181 143 NC_003454:FN0070|5end_Glycyl-tRNA_synthetase_beta_chain_708902..709132_POSITIVE 280 100 54 150 101 NC_003454:FN1918|5end_SPO0B-associated_GTP-binding_protein_415026..415256_NEGATIVE 273 110 63 181 131 NC_003454:FN1486|5end_Integral_membrane_protein_with_CBS_domains_2169299..2169529_NEGATIVE 231 59 11 153 95 NC_003454:FN1984|5end_Glutaredoxin-like_protein_485487..485717_POSITIVE 230 109 67 185 145 NC_003454:FN0988|5end_phosphoribosylaminoimidazole-succinocarboxamide_synthase_1640968..1641198_NEGATIVE 221 109 71 215 177 NC_003454:FN1347|5end_Hypothetical_cytosolic_protein_2000300..2000530_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 493 110 64 146 100 NC_003454:FN1821|3end_Hypothetical_cytosolic_protein_311209..311359_POSITIVE 382 103 63 72 33 NC_003454:FN0669|3end_High-affinity_zinc_uptake_system_ATP-binding_protein_znuC_1325694..1325844_POSITIVE 274 100 61 43 2 NC_003454:FN1919|3end_Methyltransferase_415133..415283_NEGATIVE 235 101 68 70 43 NC_003454:FN0598|3end_Phospholipid-lipopolysaccharide_ABC_transporter_1253712..1253862_POSITIVE 221 109 71 45 7 NC_003454:FN1348|3end_ABC_transporter_ATP-binding_protein_2000470..2000620_NEGATIVE 217 109 71 62 24 NC_003454:FN0422|3end_carbamoyl-phosphate_synthase_large_subunit_1066283..1066433_POSITIVE 204 87 50 47 11 NC_003454:FN0922|3end_Homoserine_kinase_1576588..1576738_NEGATIVE 192 60 11 95 44 NC_003454:FN1117|3end_LSU_ribosomal_protein_L21P_1760636..1760786_POSITIVE 191 99 72 47 25 NC_003454:FN1577|3end_Rod_shape-determining_protein_mreB_87377..87527_NEGATIVE 189 44 1 120 71 NC_003454:FN1830|3end_DNA_polymerase_III_subunits_gamma_and_tau_318571..318721_NEGATIVE 187 109 68 108 65 NC_003454:FN0797|3end_hypothetical_protein_1455668..1455818_NEGATIVE 186 51 12 130 100 NC_003454:FN0467|3end_murein_hydrolase_exporter_1113300..1113450_POSITIVE 186 59 11 131 75 NC_003454:FN0198|3end_Transcriptional_regulatory_protein_825823..825973_POSITIVE 185 33 6 127 104 NC_003454:FN0016|3end_hypothetical_protein_654366..654516_POSITIVE 185 33 8 67 31 NC_003454:FN1735|3end_V-type_ATP_synthase_subunit_A_234251..234401_NEGATIVE 183 59 13 135 81 NC_003454:FN1737|3end_V-type_ATP_synthase_subunit_F_236039..236189_NEGATIVE 180 43 9 116 77 NC_003454:FN0973|3end_Histidinol-phosphate_aminotransferase_1625626..1625776_NEGATIVE 177 110 71 43 9 NC_003454:FN1164|3end_Glucokinase_1822781..1822931_POSITIVE 175 59 12 145 97 NC_003454:FN0384|3end_hypothetical_protein_1017969..1018119_POSITIVE 175 50 19 94 57 NC_003454:FN2009|3end_Glycine_betaine_transport_system_permease_protein_508319..508469_NEGATIVE