Origin IGS: agctatacctcaattaatcttttatatttggtatataatagcattttttttaaatttttcaaaaaaattaaaaaaatattttaaaattatagataaaaatctatatatatgataaaattataaaggaatagtatagtcacatgggaggacaagaaatatgtcagataataatatgaagtttaatctttttataggagaaaattttaatgagttaatctcattgccaacaaatcgaataattataaggaatctattatcagtagcagatagagatgttgttgttttaaataatagtttatctttaccagagcttgtacaaaagtta .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9 taacttttgtacaagctctggtaaagataaactattatttaaaacaacaacatctctatctgctactgataatagattccttataattattcgatttgttggcaatgagattaactcattaaaattttctcctataaaaagattaaacttcatattattatctgacatatttcttgtcctcccatgtgactatactattcctttataattttatcatatatatagatttttatctataattttaaaatatttttttaatttttttgaaaaatttaaaaaaaatgctattatataccaaatataaaagattaattgaggtatagct Mask Tandem Repeat Region ================================================ agctatacctcaattaatcttttatatttggtatataatagcattttttttaaatttttcaaaaaaattaaaaaaatattttaaaattatagataaaaatctatatatatgataaaattataaaggaatagtatagtcacatgggaggacaagaaatatgtcagataataatatgaagtttaatctttttataggagaaaattttaatgagttaatctcattgccaacaaatcgaataattataaggaatctattatcagtagcagatagagatgttgttgttttaaataatagtttatctttaccagagcttgtacaaaagtta Find is-nt database================================================ Query_seq: FN0923:FN0924|FN0923:FN0924:Cardiolipin synthetase:hypothetical protein:<-->:1579068..1579392 325 agctatacctcaattaatcttttatatttggtatataatagcattttttttaaatttttcaaaaaaattaaaaaaatattttaaaattatagataaaaatctatatatatgataaaattataaaggaatagtatagtcacatgggaggacaagaaatatgtcagataataatatgaagtttaatctttttataggagaaaattttaatgagttaatctcattgccaacaaatcgaataattataaggaatctattatcagtagcagatagagatgttgttgttttaaataatagtttatctttaccagagcttgtacaaaagtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN0923:FN0924|FN0923:FN0924:Cardiolipin synthetase:hypothetical protein:<-->:1579068..1579392 325 agctatacctcaattaatcttttatatttggtatataatagcattttttttaaatttttcaaaaaaattaaaaaaatattttaaaattatagataaaaatctatatatatgataaaattataaaggaatagtatagtcacatgggaggacaagaaatatgtcagataataatatgaagtttaatctttttataggagaaaattttaatgagttaatctcattgccaacaaatcgaataattataaggaatctattatcagtagcagatagagatgttgttgttttaaataatagtttatctttaccagagcttgtacaaaagtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN0923:FN0924|FN0923:FN0924:Cardiolipin synthetase:hypothetical protein:<-->:1579068..1579392 325 agctatacctcaattaatcttttatatttggtatataatagcattttttttaaatttttcaaaaaaattaaaaaaatattttaaaattatagataaaaatctatatatatgataaaattataaaggaatagtatagtcacatgggaggacaagaaatatgtcagataataatatgaagtttaatctttttataggagaaaattttaatgagttaatctcattgccaacaaatcgaataattataaggaatctattatcagtagcagatagagatgttgttgttttaaataatagtttatctttaccagagcttgtacaaaagtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 agctatacctcaattaatcttttatatttggtatataatagcattttttttaaatttttcaaaaaaattaaaaaaatattttaaaattatagataaaaatctatatatatgataaaattataaaggaatagtatagtcacatgggaggacaagaaatatgtcagataataatatgaagtttaatctttttataggagaaaattttaatgagttaatctcattgccaacaaatcgaataattataaggaatctattatcagtagcagatagagatgttgttgttttaaataatagtttatctttaccagagcttgtacaaaagtta Predict ORF larger than 30AA ================================================ Protein_Len: 35 Strand: + Start: 5 End: 109 .... M P Q L I F Y I W Y I I A F F L N F S K K L K K Y F K I I D K N L Y I ........................................................................................................................................................................................................................ Protein_Len: 56 Strand: + Start: 158 End: 325 ............................................................................................................................................................. M S D N N M K F N L F I G E N F N E L I S L P T N R I I I R N L L S V A D R D V V V L N N S L S L P E L V Q K L Protein_Len: 41 Strand: - Start: 121 End: 243 ........................................................................................................................ L P I T Y D C P L V L F I D S L L I F N L R K I P S F K L S N I E N G V F R I I M .................................................................................. agctatacctcaattaatcttttatatttggtatataatagcattttttttaaatttttcaaaaaaattaaaaaaatattttaaaattatagataaaaatctatatatatgataaaattataaaggaatagtatagtcacatgggaggacaagaaatatgtcagataataatatgaagtttaatctttttataggagaaaattttaatgagttaatctcattgccaacaaatcgaataattataaggaatctattatcagtagcagatagagatgttgttgttttaaataatagtttatctttaccagagcttgtacaaaagtta 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: 27 End: 56 ..........................TTTGGTATATAATAGCATTTTTTTTAAATT............................................................................................................................................................................................................................................................................. PromScan Matrix: RpoD-17 Strand: + Score: 81 Start: 89 End: 118 ........................................................................................ATAGATAAAAATCTATATATATGATAAAAT............................................................................................................................................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ agctatacctcaattaatcttttatatttggtatataatagcattttttttaaatttttcaaaaaaattaaaaaaatattttaaaattatagataaaaatctatatatatgataaaattataaaggaatagtatagtcacatgggaggacaagaaatatgtcagataataatatgaagtttaatctttttataggagaaaattttaatgagttaatctcattgccaacaaatcgaataattataaggaatctattatcagtagcagatagagatgttgttgttttaaataatagtttatctttaccagagcttgtacaaaagtta Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 37 HP_score: -2.1 Tail_Score: -2.6175 Start: 19 End: 41 Full_Region: aatttaaaaaaaatg ctattatat accaa atataaaag attaattgaggtata ..................ctattatataccaaatataaaag............................................................................................................................................................................................................................................................................................ TransTerm Strand: - Conf: 64 HP_score: -2.4 Tail_Score: -5.41746 Start: 68 End: 84 Full_Region: tttttatctataatt ttaaaa tattt ttttaa tttttttgaaaaatt ...................................................................ttaaaatatttttttaa................................................................................................................................................................................................................................................. Find igs database================================================ Query_seq: FN0923:FN0924|FN0923:FN0924:Cardiolipin synthetase:hypothetical protein:<-->:1579068..1579392 325 agctatacctcaattaatcttttatatttggtatataatagcattttttttaaatttttcaaaaaaattaaaaaaatattttaaaattatagataaaaatctatatatatgataaaattataaaggaatagtatagtcacatgggaggacaagaaatatgtcagataataatatgaagtttaatctttttataggagaaaattttaatgagttaatctcattgccaacaaatcgaataattataaggaatctattatcagtagcagatagagatgttgttgttttaaataatagtttatctttaccagagcttgtacaaaagtta Intra-Species Hit: Count: 1 Min: 1 Max: 325 Len: 325 Subject: NC_003454_FN0923_FN0924|Cardiolipin synthetase:hypothetical protein|NEGATIVE:POSITIVE|[1579068,1579392]|325 HSP 1 e-value: 1.0E-103 bit: 377.0 Len: 190 Query Start:136 Query End:325 Subject Strand: POSITIVE Subject Start: 136 Subject End: 325 .......................................................................................................................................gtcacatgggaggacaagaaatatgtcagataataatatgaagtttaatctttttataggagaaaattttaatgagttaatctcattgccaacaaatcgaataattataaggaatctattatcagtagcagatagagatgttgttgttttaaataatagtttatctttaccagagcttgtacaaaagtta .......................................................................................................................................gtcacatgggaggacaagaaatatgtcagataataatatgaagtttaatctttttataggagaaaattttaatgagttaatctcattgccaacaaatcgaataattataaggaatctattatcagtagcagatagagatgttgttgttttaaataatagtttatctttaccagagcttgtacaaaagtta HSP 2 e-value: 3.0E-15 bit: 83.8 Len: 42 Query Start:1 Query End:42 Subject Strand: POSITIVE Subject Start: 1 Subject End: 42 agctatacctcaattaatcttttatatttggtatataatagc........................................................................................................................................................................................................................................................................................... agctatacctcaattaatcttttatatttggtatataatagc........................................................................................................................................................................................................................................................................................... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGCUAUACCUCAAUUAAUCUUUUAUAUUUGGUAUAUAAUAGCAUUUUUUUUAAAUUUUUCAAAAAAAUUAAAAAAAUAUUUUAAAAUUAUAGAUAAAAAUCUAUAUAUAUGAUAAAAUUAUAAAGGAAUAGUAUAGUCACAUGGGAGGACAAGAAAUAUGUCAGAUAAUAAUAUGAAGUUUAAUCUUUUUAUAGGAGAAAAUUUUAAUGAGUUAAUCUCAUUGCCAACAAAUCGAAUAAUUAUAAGGAAUCUAUUAUCAGUAGCAGAUAGAGAUGUUGUUGUUUUAAAUAAUAGUUUAUCUUUACCAGAGCUUGUACAAAAGUUA .(((((.((((......((((((((((((..((((((.......(((((((((.((((....)))).)))))))))...........(((((((....)))))))))))))...))).)))))))))...((......))....))))...............(((((((....(((((((..((((.....))))..)))))))((((((.....)))))).............................))))))).))))).((((((..(((((((......))))))).))))))........(((((......))))). (-54.40) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAACUUUUGUACAAGCUCUGGUAAAGAUAAACUAUUAUUUAAAACAACAACAUCUCUAUCUGCUACUGAUAAUAGAUUCCUUAUAAUUAUUCGAUUUGUUGGCAAUGAGAUUAACUCAUUAAAAUUUUCUCCUAUAAAAAGAUUAAACUUCAUAUUAUUAUCUGACAUAUUUCUUGUCCUCCCAUGUGACUAUACUAUUCCUUUAUAAUUUUAUCAUAUAUAUAGAUUUUUAUCUAUAAUUUUAAAAUAUUUUUUUAAUUUUUUUGAAAAAUUUAAAAAAAAUGCUAUUAUAUACCAAAUAUAAAAGAUUAAUUGAGGUAUAGCU .............((((..((..(((((................((((((.(((..((((.......))))...((((......))))....)))))))))..((((((.....))))))...)))))..))..............((((((.((((..((((...((((((...((((......).))).............((((((..(((......(((((((....))))))).(((((((....((((((((.....)))))))))))))))...)))..))))))....))))))...))))))))))))))..)))) (-41.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 663 50 1 141 92 NC_003454:FN0923|5end_Cardiolipin_synthetase_1578977..1579207_NEGATIVE 260 307 264 104 64 NC_003454:FN1876|5end_4-methyl-5(B-hydroxyethyl)-thiazole_monophosphate_biosynthesis_enzyme_365064..365294_NEGATIVE 225 310 263 65 27 NC_003454:FN0176|5end_Cell_division_inhibitor_MinD_801157..801387_POSITIVE 224 282 254 86 54 NC_003454:FN1635|5end_LSU_ribosomal_protein_L14P_136572..136802_NEGATIVE 216 295 260 71 33 NC_003454:FN0940|5end_hypothetical_protein_1593508..1593738_NEGATIVE 209 43 1 169 129 NC_003454:FN0772|5end_Flavodoxin_1428694..1428924_POSITIVE 200 50 8 148 104 NC_003454:FN1128|5end_Acylamino-acid-releasing_enzyme_1774135..1774365_NEGATIVE 200 142 101 93 52 NC_003454:FN1101|5end_ATPase_1744547..1744777_POSITIVE 200 279 251 46 21 NC_003454:FN1908|5end_Glycerophosphoryl_diester_phosphodiesterase_401669..401899_NEGATIVE 199 259 215 147 90 NC_003454:FN0522|5end_Exonuclease_SBCC_1175730..1175960_NEGATIVE 197 320 274 189 138 NC_003454:FN1502|5end_Nickel_transport_system_permease_protein_nikC_7522..7752_NEGATIVE 195 33 4 48 16 NC_003454:FN0525|5end_Penicillin-binding_protein_1181840..1182070_NEGATIVE 195 139 93 156 104 NC_003454:FN0393|5end_Polysaccharide_deacetylase_1030528..1030758_POSITIVE 194 282 242 167 126 NC_003454:FN0355|5end_S-adenosylmethionine_synthetase_987227..987457_NEGATIVE 194 318 271 221 170 NC_003454:FN1793|5end_Phosphoenolpyruvate-protein_phosphotransferase_275273..275503_NEGATIVE 191 48 1 95 44 NC_003454:FN1335|5end_Protein_translocase_subunit_YajC_1989011..1989241_NEGATIVE 188 317 299 69 50 NC_003454:FN1844|5end_Ketoacyl_reductase_hetN_333593..333823_POSITIVE 187 303 262 42 8 NC_003454:FN0474|5end_Acriflavin_resistance_protein_B_1118939..1119169_POSITIVE 184 308 262 72 17 NC_003454:FN0972|5end_Cobyrinic_acid_a,c-diamide_synthase_1625607..1625837_NEGATIVE 184 277 250 65 37 NC_003454:FN0832|5end_hypothetical_protein_1494305..1494535_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 225 310 263 63 25 NC_003454:FN0175|3end_Cell_division_inhibitor_MinC_801235..801385_POSITIVE 224 282 254 57 25 NC_003454:FN1636|3end_SSU_ribosomal_protein_S17P_136601..136751_NEGATIVE 216 295 260 52 14 NC_003454:FN0941|3end_Gamma-glutamyltranspeptidase_1593527..1593677_NEGATIVE 195 139 93 145 93 NC_003454:FN0392|3end_Oxygen-independent_coproporphyrinogen_III_oxidase_1030597..1030747_POSITIVE 184 286 250 93 57 NC_003454:FN2128|3end_RECF_protein_638476..638626_NEGATIVE 183 282 259 126 103 NC_003454:FN1003|3end_Outer_membrane_protein_P1_precursor_1659723..1659873_POSITIVE 183 285 252 34 5 NC_003454:FN1524|3end_Dipeptide_transport_ATP-binding_protein_dppD_30664..30814_POSITIVE 182 297 257 81 44 NC_003454:FN0356|3end_Lactoylglutathione_lyase_987481..987631_NEGATIVE 182 274 242 45 11 NC_003454:FN1559|3end_cell_volume_regulation_protein_CvrA_82490..82640_POSITIVE 181 265 243 75 55 NC_003454:FN0170|3end_GTP-binding_protein_796613..796763_POSITIVE 180 316 281 58 18 NC_003454:FN2127|3end_hypothetical_protein_638226..638376_NEGATIVE 178 48 1 151 100 NC_003454:FN1973|3end_Translation_initiation_inhibitor_472230..472380_NEGATIVE 177 318 274 114 59 NC_003454:FN1581|3end_DNA_mismatch_repair_protein_mutS_90895..91045_NEGATIVE 176 284 248 54 23 NC_003454:FN1158|3end_hypothetical_protein_1814814..1814964_POSITIVE 176 151 120 142 114 NC_003454:FN0980|3end_hypothetical_protein_1632815..1632965_POSITIVE 175 311 271 58 16 NC_003454:FN0973|3end_Histidinol-phosphate_aminotransferase_1625626..1625776_NEGATIVE 175 45 1 147 109 NC_003454:FN0558|3end_TraT_complement_resistance_protein_precursor_1211412..1211562_POSITIVE 174 228 185 58 9 NC_003454:FN1890|3end_hypothetical_protein_373045..373195_NEGATIVE 173 50 18 90 60 NC_003454:FN0576|3end_D-amino_acid_dehydrogenase_large_subunit_1227302..1227452_POSITIVE 173 297 251 78 31 NC_003454:FN0088|3end_hypothetical_protein_725302..725452_POSITIVE