Origin IGS: acttaaatcatataattttttcataattctcctaccttttaaattcatactttttgattatagcataaaaaaaataactataaaagaaatattttataaataatatttaacaataaaaaaagctaaataagaaatataatttgaatagaactataaaagtaaaatatattttttatatattaaacaaaaaagatttactttactttttttagataatgtaatagaattattaaagttataacactatatattgtgttattattttatttttacacaatatatggaaaatatagaggttaaggagagttagaga .........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 tctctaactctccttaacctctatattttccatatattgtgtaaaaataaaataataacacaatatatagtgttataactttaataattctattacattatctaaaaaaagtaaagtaaatcttttttgtttaatatataaaaaatatattttacttttatagttctattcaaattatatttcttatttagctttttttattgttaaatattatttataaaatatttcttttatagttattttttttatgctataatcaaaaagtatgaatttaaaaggtaggagaattatgaaaaaattatatgatttaagt Mask Tandem Repeat Region ================================================ acttaaatcatataattttttcataattctcctaccttttaaattcatactttttgattatagcataaaaaaaataactataaaagaaatattttataaataatatttaacaataaaaaaagctaaataagaaatataatttgaatagaactataaaagtaaaatatattttttatatattaaacaaaaaagatttactttactttttttagataatgtaatagaattattaaagttataacactatatattgtgttattattttatttttacacaatatatggaaaatatagaggttaaggagagttagaga Find is-nt database================================================ Query_seq: FN0100:FN0101|FN0100:FN0101:Flavodoxins/hemoproteins:Glutaredoxin:<-->:735857..736169 313 acttaaatcatataattttttcataattctcctaccttttaaattcatactttttgattatagcataaaaaaaataactataaaagaaatattttataaataatatttaacaataaaaaaagctaaataagaaatataatttgaatagaactataaaagtaaaatatattttttatatattaaacaaaaaagatttactttactttttttagataatgtaatagaattattaaagttataacactatatattgtgttattattttatttttacacaatatatggaaaatatagaggttaaggagagttagaga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN0100:FN0101|FN0100:FN0101:Flavodoxins/hemoproteins:Glutaredoxin:<-->:735857..736169 313 acttaaatcatataattttttcataattctcctaccttttaaattcatactttttgattatagcataaaaaaaataactataaaagaaatattttataaataatatttaacaataaaaaaagctaaataagaaatataatttgaatagaactataaaagtaaaatatattttttatatattaaacaaaaaagatttactttactttttttagataatgtaatagaattattaaagttataacactatatattgtgttattattttatttttacacaatatatggaaaatatagaggttaaggagagttagaga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN0100:FN0101|FN0100:FN0101:Flavodoxins/hemoproteins:Glutaredoxin:<-->:735857..736169 313 acttaaatcatataattttttcataattctcctaccttttaaattcatactttttgattatagcataaaaaaaataactataaaagaaatattttataaataatatttaacaataaaaaaagctaaataagaaatataatttgaatagaactataaaagtaaaatatattttttatatattaaacaaaaaagatttactttactttttttagataatgtaatagaattattaaagttataacactatatattgtgttattattttatttttacacaatatatggaaaatatagaggttaaggagagttagaga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 acttaaatcatataattttttcataattctcctaccttttaaattcatactttttgattatagcataaaaaaaataactataaaagaaatattttataaataatatttaacaataaaaaaagctaaataagaaatataatttgaatagaactataaaagtaaaatatattttttatatattaaacaaaaaagatttactttactttttttagataatgtaatagaattattaaagttataacactatatattgtgttattattttatttttacacaatatatggaaaatatagaggttaaggagagttagaga Predict ORF larger than 30AA ================================================ acttaaatcatataattttttcataattctcctaccttttaaattcatactttttgattatagcataaaaaaaataactataaaagaaatattttataaataatatttaacaataaaaaaagctaaataagaaatataatttgaatagaactataaaagtaaaatatattttttatatattaaacaaaaaagatttactttactttttttagataatgtaatagaattattaaagttataacactatatattgtgttattattttatttttacacaatatatggaaaatatagaggttaaggagagttagaga 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: 81 Start: 57 End: 86 ........................................................CTTTTATAGTTATTTTTTTTATGCTATAAT................................................................................................................................................................................................................................... PromScan Matrix: RpoD-17 Strand: + Score: 81 Start: 198 End: 227 .....................................................................................................................................................................................................CTTTACTTTTTTTAGATAATGTAATAGAAT...................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ acttaaatcatataattttttcataattctcctaccttttaaattcatactttttgattatagcataaaaaaaataactataaaagaaatattttataaataatatttaacaataaaaaaagctaaataagaaatataatttgaatagaactataaaagtaaaatatattttttatatattaaacaaaaaagatttactttactttttttagataatgtaatagaattattaaagttataacactatatattgtgttattattttatttttacacaatatatggaaaatatagaggttaaggagagttagaga Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 42 HP_score: -2.3 Tail_Score: -3.59605 Start: 79 End: 98 Full_Region: ttgttaaatattatt tataaaa tatttc ttttata gttattttttttatg ..............................................................................tataaaatatttcttttata....................................................................................................................................................................................................................... Find igs database================================================ Query_seq: FN0100:FN0101|FN0100:FN0101:Flavodoxins/hemoproteins:Glutaredoxin:<-->:735857..736169 313 acttaaatcatataattttttcataattctcctaccttttaaattcatactttttgattatagcataaaaaaaataactataaaagaaatattttataaataatatttaacaataaaaaaagctaaataagaaatataatttgaatagaactataaaagtaaaatatattttttatatattaaacaaaaaagatttactttactttttttagataatgtaatagaattattaaagttataacactatatattgtgttattattttatttttacacaatatatggaaaatatagaggttaaggagagttagaga Intra-Species Hit: Count: 1 Min: 1 Max: 313 Len: 313 Subject: NC_003454_FN0100_FN0101|Flavodoxins/hemoproteins:Glutaredoxin|NEGAT IVE:POSITIVE|[735857,736169]|313 HSP 1 e-value: 1.0E-51 bit: 204.0 Len: 103 Query Start:211 Query End:313 Subject Strand: POSITIVE Subject Start: 211 Subject End: 313 ..................................................................................................................................................................................................................agataatgtaatagaattattaaagttataacactatatattgtgttattattttatttttacacaatatatggaaaatatagaggttaaggagagttagaga ..................................................................................................................................................................................................................agataatgtaatagaattattaaagttataacactatatattgtgttattattttatttttacacaatatatggaaaatatagaggttaaggagagttagaga HSP 2 e-value: 2.0E-28 bit: 127.0 Len: 64 Query Start:1 Query End:64 Subject Strand: POSITIVE Subject Start: 1 Subject End: 64 acttaaatcatataattttttcataattctcctaccttttaaattcatactttttgattatagc......................................................................................................................................................................................................................................................... acttaaatcatataattttttcataattctcctaccttttaaattcatactttttgattatagc......................................................................................................................................................................................................................................................... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACUUAAAUCAUAUAAUUUUUUCAUAAUUCUCCUACCUUUUAAAUUCAUACUUUUUGAUUAUAGCAUAAAAAAAAUAACUAUAAAAGAAAUAUUUUAUAAAUAAUAUUUAACAAUAAAAAAAGCUAAAUAAGAAAUAUAAUUUGAAUAGAACUAUAAAAGUAAAAUAUAUUUUUUAUAUAUUAAACAAAAAAGAUUUACUUUACUUUUUUUAGAUAAUGUAAUAGAAUUAUUAAAGUUAUAACACUAUAUAUUGUGUUAUUAUUUUAUUUUUACACAAUAUAUGGAAAAUAUAGAGGUUAAGGAGAGUUAGAGA ..................((((.((((((((((((((((..................(((((((..............(((((((......)))))))....(((((......(((((((((....((((((((((((.((((.(((....))).....)))).))))))))))))............((((.....)))).)))))))))...)))))...............)))))))..(((((((((((((...............))))))))))))).......))))))..)))))))))))))) (-54.46) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCUCUAACUCUCCUUAACCUCUAUAUUUUCCAUAUAUUGUGUAAAAAUAAAAUAAUAACACAAUAUAUAGUGUUAUAACUUUAAUAAUUCUAUUACAUUAUCUAAAAAAAGUAAAGUAAAUCUUUUUUGUUUAAUAUAUAAAAAAUAUAUUUUACUUUUAUAGUUCUAUUCAAAUUAUAUUUCUUAUUUAGCUUUUUUUAUUGUUAAAUAUUAUUUAUAAAAUAUUUCUUUUAUAGUUAUUUUUUUUAUGCUAUAAUCAAAAAGUAUGAAUUUAAAAGGUAGGAGAAUUAUGAAAAAAUUAUAUGAUUUAAGU ..(((((.((((((..((((...........(((((((((((...............)))))))))))......((((((.(((......................((((((((((((....((((((((.......))))))))..))))))))))))...............(((((..(..((((((((..........))))))))..)..)))))..........))).))))))....((((((((..........))))))))......)))))))))).))).)).................... (-48.66) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 675 70 21 161 112 NC_003454:FN0100|5end_Flavodoxins/hemoproteins_735766..735996_NEGATIVE 298 65 21 148 100 NC_003454:FN0592|5end_ATP-dependent_DNA_helicase_pcrA_1245712..1245942_POSITIVE 250 70 21 142 82 NC_003454:FN1786|5end_ADP-heptose_synthase_266770..267000_POSITIVE 245 47 16 114 83 NC_003454:FN0458|5end_hypothetical_protein_1103738..1103968_POSITIVE 243 70 27 141 94 NC_003454:FN0710|5end_hypothetical_protein_1368875..1369105_POSITIVE 237 47 1 94 40 NC_003454:FN0744|5end_metal_dependent_phosphohydrolase_1403072..1403302_POSITIVE 233 56 17 126 84 NC_003454:FN0711|5end_Phosphopantothenate--cysteine_ligase_1369569..1369799_POSITIVE 232 58 11 134 73 NC_003454:FN0423|5end_Dihydroorotate_dehydrogenase_electron_transfer_subunit_1066328..1066558_POSITIVE 226 46 6 45 1 NC_003454:FN1101|5end_ATPase_1744547..1744777_POSITIVE 226 100 54 197 150 NC_003454:FN0487|5end_D-lactate_dehydrogenase_1132772..1133002_NEGATIVE 226 37 13 141 116 NC_003454:FN1504|5end_Nickel-binding_protein_10015..10245_NEGATIVE 222 57 16 99 49 NC_003454:FN0075|5end_Ethanolamine_utilization_protein_eutP_713699..713929_POSITIVE 217 70 21 142 88 NC_003454:FN0822|5end_Shikimate_kinase_1481828..1482058_POSITIVE 213 60 19 137 86 NC_003454:FN0129|5end_Urease_accessory_protein_ureG_757595..757825_POSITIVE 207 50 6 113 68 NC_003454:FN1984|5end_Glutaredoxin-like_protein_485487..485717_POSITIVE 204 51 15 230 204 NC_003454:FN1818|5end_Hemolysin_activator_protein_precursor_306955..307185_NEGATIVE 203 59 16 115 83 NC_003454:FN0131|5end_Hemolysin_activator_protein_precursor_759547..759777_POSITIVE 202 67 26 221 184 NC_003454:FN1270|5end_Hypothetical_cytosolic_protein_1926592..1926822_NEGATIVE 202 45 5 112 72 NC_003454:FN0897|5end_Hypothetical_cytosolic_protein_1555833..1556063_POSITIVE 202 64 21 133 88 NC_003454:FN0535|5end_hypothetical_protein_1189351..1189581_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 245 47 16 99 68 NC_003454:FN0457|3end_hypothetical_protein_1103803..1103953_POSITIVE 243 70 27 74 27 NC_003454:FN0709|3end_Virulence_factor_mviN_1368888..1369038_POSITIVE 237 47 1 97 43 NC_003454:FN0743|3end_ATP-dependent_helicase,_DinG_family_1403155..1403305_POSITIVE 233 56 17 109 67 NC_003454:FN0710|3end_hypothetical_protein_1369632..1369782_POSITIVE 222 57 16 96 46 NC_003454:FN0074|3end_Ethanolamine_utilization_protein_eutS_713776..713926_POSITIVE 213 60 19 137 86 NC_003454:FN0128|3end_Spermidine/putrescine-binding_protein_757675..757825_POSITIVE 203 64 23 149 98 NC_003454:FN1449|3end_Fusobacterium_outer_membrane_protein_family_2118612..2118762_NEGATIVE 202 67 26 68 31 NC_003454:FN1271|3end_Protease_IV_1926745..1926895_NEGATIVE 202 64 21 68 23 NC_003454:FN0534|3end_hypothetical_protein_1189366..1189516_POSITIVE 201 59 18 148 104 NC_003454:FN0045|3end_Shikimate_5-dehydrogenase_683841..683991_POSITIVE 199 64 21 111 76 NC_003454:FN0297|3end_ATPase_associated_with_chromosome_architecture/replication_931201..931351_POSITIVE 199 59 16 107 68 NC_003454:FN1726|3end_Na+_driven_multidrug_efflux_pump_224686..224836_NEGATIVE 198 64 23 149 98 NC_003454:FN1893|3end_Fusobacterium_outer_membrane_protein_family_374412..374562_NEGATIVE 197 68 32 70 33 NC_003454:FN0169|3end_Coproporphyrinogen_III_oxidase_795228..795378_POSITIVE 196 237 195 118 70 NC_003454:FN1702|3end_undecaprenyl_pyrophosphate_phosphatase_197164..197314_NEGATIVE 193 54 13 100 68 NC_003454:FN1151|3end_Na+_driven_multidrug_efflux_pump_1805163..1805313_NEGATIVE 193 46 4 110 69 NC_003454:FN1898|3end_Sugar_transport_ATP-binding_protein_384986..385136_NEGATIVE 191 49 21 123 95 NC_003454:FN2002|3end_Permease_501851..502001_NEGATIVE 191 45 19 85 61 NC_003454:FN1910|3end_hypothetical_protein_402735..402885_NEGATIVE 191 64 30 70 36 NC_003454:FN1557|3end_30S_ribosomal_protein_S7_79652..79802_NEGATIVE