Origin IGS: attctttataatttctgaactttttcttttatccgaccaaaaattatcttcaaaagttaatttctctaattcctttatagttgactttctcttttctaagtcaaagagacctcctaatattttcagttttttctttcatttctaaaaattctcttttaatttctaatatatccatatttcccccttaacatcct .........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 aggatgttaagggggaaatatggatatattagaaattaaaagagaatttttagaaatgaaagaaaaaactgaaaatattaggaggtctctttgacttagaaaagagaaagtcaactataaaggaattagagaaattaacttttgaagataatttttggtcggataaaagaaaaagttcagaaattataaagaat Mask Tandem Repeat Region ================================================ attctttataatttctgaactttttcttttatccgaccaaaaattatcttcaaaagttaatttctctaattcctttatagttgactttctcttttctaagtcaaagagacctcctaatattttcagttttttctttcatttctaaaaattctcttttaatttctaatatatccatatttcccccttaacatcct Find is-nt database================================================ Query_seq: FN1341:FN1342|FN1341:FN1342:Bacterial Peptide Chain Release Factor 2 (RF-2):Holo-[acyl-carrier protein] synthase:<-<-:1995987..1996180 194 attctttataatttctgaactttttcttttatccgaccaaaaattatcttcaaaagttaatttctctaattcctttatagttgactttctcttttctaagtcaaagagacctcctaatattttcagttttttctttcatttctaaaaattctcttttaatttctaatatatccatatttcccccttaacatcct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN1341:FN1342|FN1341:FN1342:Bacterial Peptide Chain Release Factor 2 (RF-2):Holo-[acyl-carrier protein] synthase:<-<-:1995987..1996180 194 attctttataatttctgaactttttcttttatccgaccaaaaattatcttcaaaagttaatttctctaattcctttatagttgactttctcttttctaagtcaaagagacctcctaatattttcagttttttctttcatttctaaaaattctcttttaatttctaatatatccatatttcccccttaacatcct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN1341:FN1342|FN1341:FN1342:Bacterial Peptide Chain Release Factor 2 (RF-2):Holo-[acyl-carrier protein] synthase:<-<-:1995987..1996180 194 attctttataatttctgaactttttcttttatccgaccaaaaattatcttcaaaagttaatttctctaattcctttatagttgactttctcttttctaagtcaaagagacctcctaatattttcagttttttctttcatttctaaaaattctcttttaatttctaatatatccatatttcccccttaacatcct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 attctttataatttctgaactttttcttttatccgaccaaaaattatcttcaaaagttaatttctctaattcctttatagttgactttctcttttctaagtcaaagagacctcctaatattttcagttttttctttcatttctaaaaattctcttttaatttctaatatatccatatttcccccttaacatcct Predict ORF larger than 30AA ================================================ Protein_Len: 45 Strand: + Start: 8 End: 142 ....... M I S E L F L L S D Q K L S S K V N F S N S F I V D F L F S K S K R P P N I F S F F F H F .................................................... Protein_Len: 35 Strand: + Start: 81 End: 185 ................................................................................ M T F S F L S Q R D L L I F S V F S F I S K N S L L I S N I S I F P P ......... Protein_Len: 42 Strand: - Start: 1 End: 126 N K I I E S S K R K D S W F N D E F T L K E L E K I T S K R K E L D F L G G L I K M .................................................................... attctttataatttctgaactttttcttttatccgaccaaaaattatcttcaaaagttaatttctctaattcctttatagttgactttctcttttctaagtcaaagagacctcctaatattttcagttttttctttcatttctaaaaattctcttttaatttctaatatatccatatttcccccttaacatcct 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================================================ attctttataatttctgaactttttcttttatccgaccaaaaattatcttcaaaagttaatttctctaattcctttatagttgactttctcttttctaagtcaaagagacctcctaatattttcagttttttctttcatttctaaaaattctcttttaatttctaatatatccatatttcccccttaacatcct Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: FN1341:FN1342|FN1341:FN1342:Bacterial Peptide Chain Release Factor 2 (RF-2):Holo-[acyl-carrier protein] synthase:<-<-:1995987..1996180 194 attctttataatttctgaactttttcttttatccgaccaaaaattatcttcaaaagttaatttctctaattcctttatagttgactttctcttttctaagtcaaagagacctcctaatattttcagttttttctttcatttctaaaaattctcttttaatttctaatatatccatatttcccccttaacatcct Intra-Species Hit: Count: 1 Min: 1 Max: 116 Len: 116 Subject: NC_003454_FN1341_FN1342|Bacterial Peptide Chain Release Factor 2 (RF-2):Holo-[acyl-carrier protein] synthase|NEGATIVE:NEGATIVE|[1995987,1996180]|194 HSP 1 e-value: 1.0E-59 bit: 230.0 Len: 116 Query Start:1 Query End:116 Subject Strand: POSITIVE Subject Start: 1 Subject End: 116 attctttataatttctgaactttttcttttatccgaccaaaaattatcttcaaaagttaatttctctaattcctttatagttgactttctcttttctaagtcaaagagacctccta.............................................................................. attctttataatttctgaactttttcttttatccgaccaaaaattatcttcaaaagttaatttctctaattcctttatagttgactttctcttttctaagtcaaagagacctccta.............................................................................. Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUCUUUAUAAUUUCUGAACUUUUUCUUUUAUCCGACCAAAAAUUAUCUUCAAAAGUUAAUUUCUCUAAUUCCUUUAUAGUUGACUUUCUCUUUUCUAAGUCAAAGAGACCUCCUA ........((((((.((((.......((((........))))......)))).))))))...(((((.............(((((((..........))))))))))))....... (-10.03) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGGAGGUCUCUUUGACUUAGAAAAGAGAAAGUCAACUAUAAAGGAAUUAGAGAAAUUAACUUUUGAAGAUAAUUUUUGGUCGGAUAAAAGAAAAAGUUCAGAAAUUAUAAAGAAU ((((((.((((((((((((..........))))))).............)))))......))))))...((((((((((..(..............)..))))))))))....... (-16.65) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 753 110 61 201 152 NC_003454:FN1341|5end_Bacterial_Peptide_Chain_Release_Factor_2_(RF-2)_1995896..1996126_NEGATIVE 235 92 57 122 82 NC_003454:FN1669|5end_Choline_transport_protein_166486..166716_NEGATIVE 220 50 14 43 9 NC_003454:FN1452|5end_Cell_division_protein_ftsA_2134076..2134306_NEGATIVE 219 98 61 104 68 NC_003454:FN0197|5end_Methyltransferase_822664..822894_POSITIVE 218 89 47 159 109 NC_003454:FN0563|5end_tRNA_(5-methylaminomethyl-2-thiouridylate)_-methyltransferase_1215286..1215516_POSITIVE 218 110 67 129 83 NC_003454:FN0070|5end_Glycyl-tRNA_synthetase_beta_chain_708902..709132_POSITIVE 215 102 61 99 46 NC_003454:FN0909|5end_DNA_repair_protein_radC_1567654..1567884_NEGATIVE 212 70 30 148 103 NC_003454:FN0542|5end_Beta_1,4_glucosyltransferase_1195223..1195453_POSITIVE 211 84 45 161 122 NC_003454:FN0718|5end_hypothetical_protein_1375616..1375846_POSITIVE 207 55 21 101 68 NC_003454:FN0464|5end_hypothetical_protein_1109675..1109905_POSITIVE 207 50 6 112 67 NC_003454:FN0258|5end_Zinc-transporting_ATPase_886009..886239_NEGATIVE 206 97 65 162 138 NC_003454:FN1311|5end_Biopolymer_transport_exbD_protein_1966250..1966480_NEGATIVE 205 101 63 203 158 NC_003454:FN1687|5end_Gluconate_5-dehydrogenase_183712..183942_NEGATIVE 202 101 61 81 43 NC_003454:FN0172|5end_RNA_binding_protein_797000..797230_POSITIVE 199 98 54 110 69 NC_003454:FN0194|5end_Dipeptide_transport_system_permease_protein_dppC_819839..820069_POSITIVE 196 109 61 127 81 NC_003454:FN0882|5end_Hemin_transport_system_ATP-binding_protein_hmuV_1543717..1543947_NEGATIVE 195 92 55 64 23 NC_003454:FN1380|5end_Citrate_lyase_beta_chain_2027248..2027478_POSITIVE 195 109 63 213 163 NC_003454:FN0796|5end_pyruvate_phosphate_dikinase_1453008..1453238_POSITIVE 194 110 64 123 74 NC_003454:FN1222|5end_hypothetical_protein_1881969..1882199_NEGATIVE 194 93 61 201 162 NC_003454:FN1203|5end_GTP-binding_protein_1863180..1863410_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 235 92 57 138 98 NC_003454:FN1670|3end_Choline_kinase_166470..166620_NEGATIVE 224 50 3 46 2 NC_003454:FN1453|3end_hypothetical_protein_2134073..2134223_NEGATIVE 219 98 61 107 71 NC_003454:FN0196|3end_Transcriptional_regulator,_FUR_family_822747..822897_POSITIVE 215 102 61 89 36 NC_003454:FN0910|3end_Nicotinate-nucleotide--dimethylbenzimidazole_phosphoribosyltransferase_1567664..1567814_NEGATIVE 212 70 30 142 97 NC_003454:FN0541|3end_Hypothetical_cytosolic_protein_1195297..1195447_POSITIVE 211 84 45 138 99 NC_003454:FN0717|3end_Ribosomal_small_subunit_pseudouridine_synthase_A_1375673..1375823_POSITIVE 208 94 55 146 100 NC_003454:FN1816|3end_hypothetical_protein_296139..296289_NEGATIVE 207 50 6 84 39 NC_003454:FN0259|3end_Zinc-transporting_ATPase_886037..886187_NEGATIVE 206 97 65 72 48 NC_003454:FN1312|3end_Biopolymer_transport_exbB_protein_1966340..1966490_NEGATIVE 199 98 54 113 72 NC_003454:FN0193|3end_Dipeptide_transport_system_permease_protein_dppB_819922..820072_POSITIVE 196 109 61 140 94 NC_003454:FN0884|3end_Hemin_transport_system_permease_protein_hmuU_1543704..1543854_NEGATIVE 195 92 55 61 20 NC_003454:FN1379|3end_Citrate_lyase_beta_chain_2027325..2027475_POSITIVE 194 110 64 108 59 NC_003454:FN1223|3end_Dihydropteridine_reductase_1881984..1882134_NEGATIVE 193 57 12 80 25 NC_003454:FN0367|3end_Integral_membrane_protein_996383..996533_NEGATIVE 193 56 11 109 56 NC_003454:FN0101|3end_Glutaredoxin_736313..736463_POSITIVE 188 50 2 123 81 NC_003454:FN1486|3end_Integral_membrane_protein_with_CBS_domains_2168019..2168169_NEGATIVE 188 96 61 56 19 NC_003454:FN0663|3end_hypothetical_protein_1319797..1319947_POSITIVE 188 75 32 135 89 NC_003454:FN1739|3end_V-type_sodium_ATP_synthase_subunit_E_237351..237501_NEGATIVE 186 98 64 130 100 NC_003454:FN0065|3end_Transcription_accessory_protein_(S1_RNA_binding_domain)_702184..702334_POSITIVE 185 73 49 37 15 NC_003454:FN1177|3end_hypothetical_protein_1837789..1837939_NEGATIVE