Origin IGS: taaactaagttagttaaaataattatcttctcccattgatgattattttaataaaataaaaataaaagtttaattattttctcccattaataattaaaccaaatatatataattactagtaatataaaaggctattgcattataatcccatttgcaatagccttagtt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aactaaggctattgcaaatgggattataatgcaatagccttttatattactagtaattatatatatttggtttaattattaatgggagaaaataattaaacttttatttttattttattaaaataatcatcaatgggagaagataattattttaactaacttagttta Mask Tandem Repeat Region ================================================ taaactaagttagttaaaataattatcttctcccattgatgattattttaataaaataaaaataaaagtttaattattttctcccattaataattaaaccaaatatatataattactagtaatataaaaggctattgcattataatcccatttgcaatagccttagtt Find is-nt database================================================ Query_seq: FN1265:FN1266|FN1265:FN1266:Outer membrane protein:UTP--glucose-1-phosphate uridylyltransferase:-><-:1922080..1922247 168 taaactaagttagttaaaataattatcttctcccattgatgattattttaataaaataaaaataaaagtttaattattttctcccattaataattaaaccaaatatatataattactagtaatataaaaggctattgcattataatcccatttgcaatagccttagtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN1265:FN1266|FN1265:FN1266:Outer membrane protein:UTP--glucose-1-phosphate uridylyltransferase:-><-:1922080..1922247 168 taaactaagttagttaaaataattatcttctcccattgatgattattttaataaaataaaaataaaagtttaattattttctcccattaataattaaaccaaatatatataattactagtaatataaaaggctattgcattataatcccatttgcaatagccttagtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN1265:FN1266|FN1265:FN1266:Outer membrane protein:UTP--glucose-1-phosphate uridylyltransferase:-><-:1922080..1922247 168 taaactaagttagttaaaataattatcttctcccattgatgattattttaataaaataaaaataaaagtttaattattttctcccattaataattaaaccaaatatatataattactagtaatataaaaggctattgcattataatcccatttgcaatagccttagtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaactaagttagttaaaataattatcttctcccattgatgattattttaataaaataaaaataaaagtttaattattttctcccattaataattaaaccaaatatatataattactagtaatataaaaggctattgcattataatcccatttgcaatagccttagtt Predict ORF larger than 30AA ================================================ taaactaagttagttaaaataattatcttctcccattgatgattattttaataaaataaaaataaaagtttaattattttctcccattaataattaaaccaaatatatataattactagtaatataaaaggctattgcattataatcccatttgcaatagccttagtt 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================================================ taaactaagttagttaaaataattatcttctcccattgatgattattttaataaaataaaaataaaagtttaattattttctcccattaataattaaaccaaatatatataattactagtaatataaaaggctattgcattataatcccatttgcaatagccttagtt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: FN1265:FN1266|FN1265:FN1266:Outer membrane protein:UTP--glucose-1-phosphate uridylyltransferase:-><-:1922080..1922247 168 taaactaagttagttaaaataattatcttctcccattgatgattattttaataaaataaaaataaaagtttaattattttctcccattaataattaaaccaaatatatataattactagtaatataaaaggctattgcattataatcccatttgcaatagccttagtt Intra-Species Hit: Count: 1 Min: 1 Max: 168 Len: 168 Subject: NC_003454_FN1265_FN1266|Outer membrane protein:UTP--glucose-1-phosphate uridylyltransferase|POSITIVE:NEGATIVE|[1922080, 1922247]|168 HSP 1 e-value: 5.0E-22 bit: 105.0 Len: 53 Query Start:116 Query End:168 Subject Strand: POSITIVE Subject Start: 116 Subject End: 168 ...................................................................................................................ctagtaatataaaaggctattgcattataatcccatttgcaatagccttagtt ...................................................................................................................ctagtaatataaaaggctattgcattataatcccatttgcaatagccttagtt HSP 2 e-value: 7.0E-15 bit: 81.8 Len: 41 Query Start:1 Query End:41 Subject Strand: POSITIVE Subject Start: 1 Subject End: 41 taaactaagttagttaaaataattatcttctcccattgatg............................................................................................................................... taaactaagttagttaaaataattatcttctcccattgatg............................................................................................................................... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAACUAAGUUAGUUAAAAUAAUUAUCUUCUCCCAUUGAUGAUUAUUUUAAUAAAAUAAAAAUAAAAGUUUAAUUAUUUUCUCCCAUUAAUAAUUAAACCAAAUAUAUAUAAUUACUAGUAAUAUAAAAGGCUAUUGCAUUAUAAUCCCAUUUGCAAUAGCCUUAGUU ...((((.....(((((((((((((((..........)))))))))))))))...............(((((((((((..........))))))))))).................)))).......((((((((((((.............)))))))))))).... (-38.72) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AACUAAGGCUAUUGCAAAUGGGAUUAUAAUGCAAUAGCCUUUUAUAUUACUAGUAAUUAUAUAUAUUUGGUUUAAUUAUUAAUGGGAGAAAAUAAUUAAACUUUUAUUUUUAUUUUAUUAAAAUAAUCAUCAAUGGGAGAAGAUAAUUAUUUUAACUAACUUAGUUUA ....((((((((((((.............)))))))))))).......((((((........(((...((((((((((((..........))))))))))))..)))..........((((((((((.(((..........))).))))))))))...)).))))... (-31.72) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 217 160 118 205 162 NC_003454:FN1949|5end_Xaa-Pro_dipeptidase_454922..455152_NEGATIVE 214 149 108 211 162 NC_003454:FN2010|5end_Transcriptional_regulator,_MarR_family_510302..510532_NEGATIVE 210 160 124 225 192 NC_003454:FN0165|5end_hypothetical_protein_793491..793721_POSITIVE 204 44 6 181 130 NC_003454:FN0036|5end_Hypothetical_membrane-spanning_Protein_677609..677839_NEGATIVE 203 160 124 165 125 NC_003454:FN2104|5end_hypothetical_protein_614237..614467_POSITIVE 202 58 26 112 81 NC_003454:FN0944|5end_Na+_driven_multidrug_efflux_pump_1598855..1599085_NEGATIVE 201 105 68 126 84 NC_003454:FN1929|5end_Competence-damage_protein_cinA_429733..429963_NEGATIVE 192 160 114 63 10 NC_003454:FN0489|5end_Prolipoprotein_diacylglyceryl_transferase_1135425..1135655_NEGATIVE 190 34 8 80 56 NC_003454:FN1386|5end_SWF/SNF_family_helicase_2042866..2043096_NEGATIVE 189 59 14 143 93 NC_003454:FN0945|5end_Ser/Thr_and_Tyr_protein_phosphatase_(dual_specificity)_1599624..1599854_NEGATIVE 185 158 126 79 46 NC_003454:FN0868|5end_ATPase_of_the_PP_superfamily_1528050..1528280_NEGATIVE 184 160 127 231 203 NC_003454:FN0903|5end_Polysialic_acid_capsule_expression_protein_kpsF_1561116..1561346_POSITIVE 184 44 8 188 150 NC_003454:FN1505|5end_6,7-dimethyl-8-ribityllumazine_synthase_10396..10626_POSITIVE 178 160 111 138 95 NC_003454:FN1660|5end_ATP-dependent_DNA_helicase_recG_157908..158138_NEGATIVE 175 157 132 201 169 NC_003454:FN1532|5end_murein_hydrolase_exporter_45319..45549_NEGATIVE 173 160 126 65 24 NC_003454:FN2068|5end_dGTP_triphosphohydrolase_578986..579216_NEGATIVE 173 156 127 50 11 NC_003454:FN1873|5end_Bis(5'-nucleosyl)-tetraphosphatase_363440..363670_NEGATIVE 172 43 5 143 102 NC_003454:FN0325|5end_50S_ribosomal_protein_L20_961274..961504_NEGATIVE 170 149 124 34 4 NC_003454:FN2101|5end_Transporter_610246..610476_POSITIVE 170 53 27 36 13 NC_003454:FN2035|5end_DNA-directed_RNA_polymerase_beta'_chain_542781..543011_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 261 160 117 75 33 NC_003454:FN0514|3end_hypothetical_protein_1163912..1164062_POSITIVE 217 160 118 64 21 NC_003454:FN1950|3end_Serine_protease_455063..455213_NEGATIVE 214 149 108 80 31 NC_003454:FN2011|3end_Valyl-tRNA_synthetase_510433..510583_NEGATIVE 203 160 124 57 17 NC_003454:FN2103|3end_RecA_protein_614209..614359_POSITIVE 201 105 68 115 73 NC_003454:FN1930|3end_Phosphatidylglycerophosphatase_A_429744..429894_NEGATIVE 192 154 114 110 57 NC_003454:FN2109|3end_UDP-glucose_4-epimerase_621917..622067_POSITIVE 190 34 8 56 32 NC_003454:FN1387|3end_Metal_dependent_hydrolase_2042890..2043040_NEGATIVE 189 157 122 37 1 NC_003454:FN0010|3end_nicotinate-nucleotide_pyrophosphorylase_651118..651268_POSITIVE 188 158 129 59 22 NC_003454:FN1984|3end_Glutaredoxin-like_protein_487204..487354_POSITIVE 183 160 126 81 36 NC_003454:FN1340|3end_Glutamyl-tRNA_synthetase_1993353..1993503_NEGATIVE 183 160 126 58 13 NC_003454:FN0371|3end_hypothetical_protein_1000840..1000990_POSITIVE 180 143 115 69 39 NC_003454:FN1383|3end_DNA_polymerase_III_alpha_subunit_2034455..2034605_NEGATIVE 180 160 129 72 44 NC_003454:FN0400|3end_Dipeptide_transport_ATP-binding_protein_dppF_1039700..1039850_POSITIVE 179 160 126 79 49 NC_003454:FN0212|3end_hypothetical_protein_837583..837733_NEGATIVE 178 160 111 83 40 NC_003454:FN1661|3end_Hypothetical_cytosolic_protein_157963..158113_NEGATIVE 176 160 126 62 17 NC_003454:FN0528|3end_Cold_shock_protein_1184746..1184896_POSITIVE 175 159 115 124 79 NC_003454:FN1732|3end_hypothetical_protein_231281..231431_NEGATIVE 174 160 129 75 48 NC_003454:FN0515|3end_Acriflavin_resistance_protein_D_1163938..1164088_NEGATIVE 172 43 5 118 77 NC_003454:FN0326|3end_LSU_ribosomal_protein_L35P_961299..961449_NEGATIVE 170 160 125 72 42 NC_003454:FN1043|3end_hypothetical_protein_1694450..1694600_POSITIVE