Origin IGS: ctcctattctgttttaaattataacataattttctttgcattggtaatttttcaaaataaaaatggataattttttctaaaatattagaaattatccatttttagataatttattgatt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aatcaataaattatctaaaaatggataatttctaatattttagaaaaaattatccatttttattttgaaaaattaccaatgcaaagaaaattatgttataatttaaaacagaataggag Mask Tandem Repeat Region ================================================ ctcctattctgttttaaattataacataattttctttgcattggtaatttttcaaaataaaaatggataattttttctaaaatattagaaattatccatttttagataatttattgatt Find is-nt database================================================ Query_seq: FN0875:FN0876|FN0875:FN0876:23S rRNA methyltransferase:Gamma-glutamyltranspeptidase:<-<-:1535765..1535883 119 ctcctattctgttttaaattataacataattttctttgcattggtaatttttcaaaataaaaatggataattttttctaaaatattagaaattatccatttttagataatttattgatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN0875:FN0876|FN0875:FN0876:23S rRNA methyltransferase:Gamma-glutamyltranspeptidase:<-<-:1535765..1535883 119 ctcctattctgttttaaattataacataattttctttgcattggtaatttttcaaaataaaaatggataattttttctaaaatattagaaattatccatttttagataatttattgatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN0875:FN0876|FN0875:FN0876:23S rRNA methyltransferase:Gamma-glutamyltranspeptidase:<-<-:1535765..1535883 119 ctcctattctgttttaaattataacataattttctttgcattggtaatttttcaaaataaaaatggataattttttctaaaatattagaaattatccatttttagataatttattgatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ctcctattctgttttaaattataacataattttctttgcattggtaatttttcaaaataaaaatggataattttttctaaaatattagaaattatccatttttagataatttattgatt Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: - Start: 3 End: 95 .. R N Q K L N Y C L K R Q M P L K E F Y F H I I K E L I N S I M ........................ ctcctattctgttttaaattataacataattttctttgcattggtaatttttcaaaataaaaatggataattttttctaaaatattagaaattatccatttttagataatttattgatt 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================================================ ctcctattctgttttaaattataacataattttctttgcattggtaatttttcaaaataaaaatggataattttttctaaaatattagaaattatccatttttagataatttattgatt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: FN0875:FN0876|FN0875:FN0876:23S rRNA methyltransferase:Gamma-glutamyltranspeptidase:<-<-:1535765..1535883 119 ctcctattctgttttaaattataacataattttctttgcattggtaatttttcaaaataaaaatggataattttttctaaaatattagaaattatccatttttagataatttattgatt Intra-Species Hit: Count: 1 Min: 1 Max: 119 Len: 119 Subject: NC_003454_FN0875_FN0876|23S rRNA methyltransferase:Gamma- glutamyltranspeptidase|NEGATIVE:NEGATIVE|[1535765, 1535883]|119 HSP 1 e-value: 1.0E-61 bit: 236.0 Len: 119 Query Start:1 Query End:119 Subject Strand: POSITIVE Subject Start: 1 Subject End: 119 ctcctattctgttttaaattataacataattttctttgcattggtaatttttcaaaataaaaatggataattttttctaaaatattagaaattatccatttttagataatttattgatt ctcctattctgttttaaattataacataattttctttgcattggtaatttttcaaaataaaaatggataattttttctaaaatattagaaattatccatttttagataatttattgatt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUCCUAUUCUGUUUUAAAUUAUAACAUAAUUUUCUUUGCAUUGGUAAUUUUUCAAAAUAAAAAUGGAUAAUUUUUUCUAAAAUAUUAGAAAUUAUCCAUUUUUAGAUAAUUUAUUGAUU ..............((((((((.............((((....))))..........(((((((((((((((...(((((....)))))))))))))))))))).))))))))...... (-20.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUCAAUAAAUUAUCUAAAAAUGGAUAAUUUCUAAUAUUUUAGAAAAAAUUAUCCAUUUUUAUUUUGAAAAAUUACCAAUGCAAAGAAAAUUAUGUUAUAAUUUAAAACAGAAUAGGAG ......((((((((.((((((((((((((((((((....)))))...)))))))))))))))(((((..............)))))...........)))))))).............. (-19.14) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 664 50 1 141 92 NC_003454:FN0875|5end_23S_rRNA_methyltransferase_1535674..1535904_NEGATIVE 243 47 1 149 106 NC_003454:FN0592|5end_ATP-dependent_DNA_helicase_pcrA_1245712..1245942_POSITIVE 198 78 31 62 15 NC_003454:FN1277|5end_Aminoacyl-histidine_dipeptidase_1936754..1936984_NEGATIVE 197 105 64 57 6 NC_003454:FN1918|5end_SPO0B-associated_GTP-binding_protein_415026..415256_NEGATIVE 194 50 4 219 183 NC_003454:FN0726|5end_hypothetical_protein_1385265..1385495_NEGATIVE 180 50 1 161 97 NC_003454:FN1097|5end_hypothetical_protein_1741840..1742070_POSITIVE 180 37 1 129 98 NC_003454:FN1724|5end_Potassium_uptake_protein_KtrA_223310..223540_NEGATIVE 178 49 1 193 130 NC_003454:FN0060|5end_D-alanyl-D-alanine_carboxypeptidase_695774..696004_POSITIVE 175 38 1 132 99 NC_003454:FN1143|5end_glucosamine-6-phosphate_deaminase_1792461..1792691_POSITIVE 173 49 1 148 98 NC_003454:FN1399|5end_Hypothetical_cytosolic_protein_2054355..2054585_POSITIVE 173 41 4 153 113 NC_003454:FN0648|5end_Exoenzyme_regulatory_protein_aepA_precursor_1306061..1306291_NEGATIVE 173 97 51 155 110 NC_003454:FN1997|5end_Transcriptional_regulator_499758..499988_POSITIVE 172 45 7 132 80 NC_003454:FN1750|5end_Pyruvate-flavodoxin_oxidoreductase_247811..248041_POSITIVE 171 42 22 22 1 NC_003454:FN1347|5end_Hypothetical_cytosolic_protein_2000300..2000530_NEGATIVE 168 39 4 84 43 NC_003454:FN1168|5end_Macrolide-efflux_protein_1827559..1827789_NEGATIVE 168 34 1 133 95 NC_003454:FN0449|5end_hypothetical_protein_1092683..1092913_POSITIVE 168 48 1 140 87 NC_003454:FN0325|5end_50S_ribosomal_protein_L20_961274..961504_NEGATIVE 167 50 1 116 74 NC_003454:FN0753|5end_aspartyl/glutamyl-tRNA_amidotransferase_subunit_B_1413169..1413399_NEGATIVE 165 105 67 215 175 NC_003454:FN1155|5end_Cell_division_protein_ftsI_1809442..1809672_POSITIVE 163 102 65 94 60 NC_003454:FN0333|5end_Glycerol_uptake_operon_antiterminator_regulatory_protein_967807..968037_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 191 110 65 65 24 NC_003454:FN2074|3end_BslIM_584246..584396_NEGATIVE 180 103 64 139 109 NC_003454:FN1954|3end_Glycerophosphoryl_diester_phosphodiesterase_459777..459927_NEGATIVE 180 37 1 114 83 NC_003454:FN1725|3end_Potassium_uptake_protein_KtrB_223325..223475_NEGATIVE 178 78 43 34 2 NC_003454:FN1278|3end_Acetyltransferase_1936782..1936932_NEGATIVE 175 38 1 114 81 NC_003454:FN1142|3end_Oxygen-independent_coproporphyrinogen_III_oxidase_1792523..1792673_POSITIVE 174 53 24 132 93 NC_003454:FN0029|3end_Flavodoxin_666596..666746_NEGATIVE 173 41 4 125 85 NC_003454:FN0649|3end_Exoenzyme_regulatory_protein_aepA_precursor_1306089..1306239_NEGATIVE 173 97 51 59 14 NC_003454:FN1996|3end_Transporter_499742..499892_POSITIVE 171 49 1 151 88 NC_003454:FN1096|3end_hypothetical_protein_1741911..1742061_POSITIVE 168 39 4 63 22 NC_003454:FN1169|3end_L-lactate_dehydrogenase_1827580..1827730_NEGATIVE 168 34 1 117 79 NC_003454:FN0448|3end_DNA-repair_protein_1092747..1092897_POSITIVE 168 48 1 115 62 NC_003454:FN0326|3end_LSU_ribosomal_protein_L35P_961299..961449_NEGATIVE 167 50 1 102 60 NC_003454:FN0754|3end_Glutamyl-tRNA(Gln)_amidotransferase_subunit_A_1413183..1413333_NEGATIVE 163 102 65 82 48 NC_003454:FN0334|3end_Aspartate/aromatic_aminotransferase_967819..967969_NEGATIVE 163 45 10 87 49 NC_003454:FN0293|3end_Hemolysin_activator_protein_precursor_926023..926173_NEGATIVE 158 70 25 57 15 NC_003454:FN0913|3end_Cobinamide_kinase_1570172..1570322_NEGATIVE 155 25 1 55 31 NC_003454:FN0991|3end_CDP-diacylglycerol--serine_O-phosphatidyltransferase_1646675..1646825_POSITIVE 153 45 1 138 100 NC_003454:FN0182|3end_Sarcosine_oxidase_alpha_subunit_805801..805951_NEGATIVE 153 40 1 110 74 NC_003454:FN1738|3end_ATP_synthase_subunit_C_236340..236490_NEGATIVE 152 55 19 103 65 NC_003454:FN1239|3end_hypothetical_protein_1896403..1896553_NEGATIVE