Origin IGS: tcctaataggataaatatttttttcattttttactcctctattcttataattctacggtaaaagttaaaatctccatcaagctcttcatcatcatagttttttaactcatttaaatcactttttctccaagctacagtctataaatttctttcaactagcataggctttacagtgtaacttctcttactttactaaaattatcttttatatattcttctaaaaattcttttttcctctcttctgataaacttgactaaatattattatataaatcttgcacttttcaactccttataattttaacttttataaaaaaagaagtccaaaaaataatagacttcttaatagctacccctaaaa .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9 ttttaggggtagctattaagaagtctattattttttggacttctttttttataaaagttaaaattataaggagttgaaaagtgcaagatttatataataatatttagtcaagtttatcagaagagaggaaaaaagaatttttagaagaatatataaaagataattttagtaaagtaagagaagttacactgtaaagcctatgctagttgaaagaaatttatagactgtagcttggagaaaaagtgatttaaatgagttaaaaaactatgatgatgaagagcttgatggagattttaacttttaccgtagaattataagaatagaggagtaaaaaatgaaaaaaatatttatcctattagga Mask Tandem Repeat Region ================================================ tcctaataggataaatatttttttcattttttactcctctattcttataattctacggtaaaagttaaaatctccatcaagctcttcatcatcatagttttttaactcatttaaatcactttttctccaagctacagtctataaatttctttcaactagcataggctttacagtgtaacttctcttactttactaaaattatcttttatatattcttctaaaaattcttttttcctctcttctgataaacttgactaaatattattatataaatcttgcacttttcaactccttataattttaacttttataaaaaaagaagtccaaaaaataatagacttcttaatagctacccctaaaa Find is-nt database================================================ Query_seq: FN1009:FN1010|FN1009:FN1010:hypothetical protein:Hypothetical cytosolic protein:<-<-:1664041..1664401 361 tcctaataggataaatatttttttcattttttactcctctattcttataattctacggtaaaagttaaaatctccatcaagctcttcatcatcatagttttttaactcatttaaatcactttttctccaagctacagtctataaatttctttcaactagcataggctttacagtgtaacttctcttactttactaaaattatcttttatatattcttctaaaaattcttttttcctctcttctgataaacttgactaaatattattatataaatcttgcacttttcaactccttataattttaacttttataaaaaaagaagtccaaaaaataatagacttcttaatagctacccctaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN1009:FN1010|FN1009:FN1010:hypothetical protein:Hypothetical cytosolic protein:<-<-:1664041..1664401 361 tcctaataggataaatatttttttcattttttactcctctattcttataattctacggtaaaagttaaaatctccatcaagctcttcatcatcatagttttttaactcatttaaatcactttttctccaagctacagtctataaatttctttcaactagcataggctttacagtgtaacttctcttactttactaaaattatcttttatatattcttctaaaaattcttttttcctctcttctgataaacttgactaaatattattatataaatcttgcacttttcaactccttataattttaacttttataaaaaaagaagtccaaaaaataatagacttcttaatagctacccctaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN1009:FN1010|FN1009:FN1010:hypothetical protein:Hypothetical cytosolic protein:<-<-:1664041..1664401 361 tcctaataggataaatatttttttcattttttactcctctattcttataattctacggtaaaagttaaaatctccatcaagctcttcatcatcatagttttttaactcatttaaatcactttttctccaagctacagtctataaatttctttcaactagcataggctttacagtgtaacttctcttactttactaaaattatcttttatatattcttctaaaaattcttttttcctctcttctgataaacttgactaaatattattatataaatcttgcacttttcaactccttataattttaacttttataaaaaaagaagtccaaaaaataatagacttcttaatagctacccctaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 1 Min: 76 Max: 239 Len: 164 Subject: UniRef90_Q7P5I4 Cluster: Hypothetical protein FNV0965; n=1; Fusobacterium nucleatum subsp. vincentii ATCC 49256|Rep: Hypothetical protein FNV0965 - Fusobacterium nucleatum subsp. vincentii ATCC 49256 HSP 1 e-value: 1.0E-12 bit: 52.8 Len: 108 Query Start:76 Query End:183 Subject Strand: null Subject Start: 78 Subject End: 113 ........................................................................... R S Y T V K P M L V E R N L * T V A W R K S D L N E L K N Y D D E E L D .................................................................................................................................................................................. ........................................................................... R E V T I K P M L V E R N L Q T V A W K K S N L E E L K D Y D I E L L N .................................................................................................................................................................................. HSP 2 e-value: 1.0E-12 bit: 42.0 Len: 69 Query Start:171 Query End:239 Subject Strand: null Subject Start: 60 Subject End: 82 .......................................................................................................................................................................... E R K K E F L E E Y I K D N F S K V R E V T L .......................................................................................................................... .......................................................................................................................................................................... E N P N E F L E E Y I K D N F S K V R E V T I .......................................................................................................................... tcctaataggataaatatttttttcattttttactcctctattcttataattctacggtaaaagttaaaatctccnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnttctgataaacttgactaaatattattatataaatcttgcacttttcaactccttataattttaacttttataaaaaaagaagtccaaaaaataatagacttcttaatagctacccctaaaa Predict ORF larger than 30AA ================================================ Protein_Len: 34 Strand: + Start: 259 End: 360 .................................................................................................................................................................................................................................................................. M L L Y K S C T F Q L L I I L T F I K K E V Q K I I D F L I A T P K . tcctaataggataaatatttttttcattttttactcctctattcttataattctacggtaaaagttaaaatctccnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnttctgataaacttgactaaatattattatataaatcttgcacttttcaactccttataattttaacttttataaaaaaagaagtccaaaaaataatagacttcttaatagctacccctaaaa 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: 84 Start: 22 End: 51 .....................TTTCATTTTTTACTCCTCTATTCTTATAAT...................................................................................................................................................................................................................................................................................................................... PromScan Matrix: RpoD-17 Strand: - Score: 83 Start: 298 End: 327 .........................................................................................................................................................................................................................................................................................................TTGGACTTCTTTTTTTATAAAAGTTAAAAT.................................. Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ tcctaataggataaatatttttttcattttttactcctctattcttataattctacggtaaaagttaaaatctccnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnttctgataaacttgactaaatattattatataaatcttgcacttttcaactccttataattttaacttttataaaaaaagaagtccaaaaaataatagacttcttaatagctacccctaaaa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: FN1009:FN1010|FN1009:FN1010:hypothetical protein:Hypothetical cytosolic protein:<-<-:1664041..1664401 361 tcctaataggataaatatttttttcattttttactcctctattcttataattctacggtaaaagttaaaatctccnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnttctgataaacttgactaaatattattatataaatcttgcacttttcaactccttataattttaacttttataaaaaaagaagtccaaaaaataatagacttcttaatagctacccctaaaa Intra-Species Hit: Count: 1 Min: 33 Max: 361 Len: 329 Subject: NC_003454_FN1009_FN1010|hypothetical protein:Hypothetical cytosolic protein|NEGATIVE:NEGATIVE|[1664041,1664401]|361 HSP 1 e-value: 2.0E-50 bit: 200.0 Len: 122 Query Start:240 Query End:361 Subject Strand: POSITIVE Subject Start: 240 Subject End: 361 ...............................................................................................................................................................................................................................................ttctgataaacttgactaaatattattatataaatcttgcacttttcaactccttataattttaacttttatnnnnnnngaagtccaaaaaataatagacttcttaatagctacccctaaaa ...............................................................................................................................................................................................................................................ttctgataaacttgactaaatattattatataaatcttgcacttttcaactccttataattttaacttttataaaaaaagaagtccaaaaaataatagacttcttaatagctacccctaaaa HSP 2 e-value: 1.0E-15 bit: 85.7 Len: 43 Query Start:33 Query End:75 Subject Strand: POSITIVE Subject Start: 33 Subject End: 75 ................................actcctctattcttataattctacggtaaaagttaaaatctcc.............................................................................................................................................................................................................................................................................................. ................................actcctctattcttataattctacggtaaaagttaaaatctcc.............................................................................................................................................................................................................................................................................................. Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACUCCUCUAUUCUUAUAAUUCUACGGUAAAAGUUAAAAUCUCCAUCAAGCUCUUCAUCAUCAUAGUUUUUUAACUCAUUUAAAUCACUUUUUCUCCAAGCUACAGUCUAUAAAUUUCUUUCAACUAGCAUAGGCUUUACAGUGUAACUUCUCUUACUUUACUAAAAUUAUCUUUUAUAUAUUCUUCUAAAAAUUCUUUUUUCCUCUCUUCUGAUAAACUUGACUAAAUAUUAUUAUAUAAAUCUUGCACUUUUCAACUCCUUAUAAUUUUAACUUUUAUAAAAAAAGAAGUCCAAAAAAUAAUAGACUUCUUAAUAGCUACCCCUAAAA ......(((((..............((((((((((((((........((((............(((..(((((.....)))))..))).........))))..(((((((..................)))))))....(((((((....................(((((........................................)))))..........((((....)))).....)))))))...............)))))))))))))).....((((((((............)))))))))))))............ (-32.37) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUUAGGGGUAGCUAUUAAGAAGUCUAUUAUUUUUUGGACUUCUUUUUUUAUAAAAGUUAAAAUUAUAAGGAGUUGAAAAGUGCAAGAUUUAUAUAAUAAUAUUUAGUCAAGUUUAUCAGAAGAGAGGAAAAAAGAAUUUUUAGAAGAAUAUAUAAAAGAUAAUUUUAGUAAAGUAAGAGAAGUUACACUGUAAAGCCUAUGCUAGUUGAAAGAAAUUUAUAGACUGUAGCUUGGAGAAAAAGUGAUUUAAAUGAGUUAAAAAACUAUGAUGAUGAAGAGCUUGAUGGAGAUUUUAACUUUUACCGUAGAAUUAUAAGAAUAGAGGAGU (((((.((.........((((((((((........))))))))))......((((((((((((((.......((........))......................(((((((((.(((..(...((........(((((((...........(((((.....)))))..........))))))).((((......((...(((((((.(((....)))...))))..)))..))......))))...................))....)..))).)))))))))...)))))))))))))))).))))).................. (-57.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 786 50 1 173 124 NC_003454:FN1009|5end_hypothetical_protein_1663950..1664180_NEGATIVE 316 76 33 197 149 NC_003454:FN1862|5end_L-beta-lysine_5,6-aminomutase_beta_subunit_353122..353352_NEGATIVE 267 213 171 206 165 NC_003454:FN0987|5end_Amidophosphoribosyltransferase_1640210..1640440_NEGATIVE 262 208 161 103 52 NC_003454:FN1476|5end_N-acetylmannosamine-6-phosphate_2-epimerase_2158672..2158902_POSITIVE 261 216 180 229 189 NC_003454:FN1834|5end_Biopolymer_transport_exbB_protein_323239..323469_NEGATIVE 255 209 161 112 54 NC_003454:FN1367|5end_Methyl-accepting_chemotaxis_protein_2018143..2018373_NEGATIVE 254 107 62 129 88 NC_003454:FN1835|5end_hypothetical_protein_323680..323910_NEGATIVE 251 130 89 87 45 NC_003454:FN0669|5end_High-affinity_zinc_uptake_system_ATP-binding_protein_znuC_1324931..1325161_POSITIVE 250 142 105 193 161 NC_003454:FN0751|5end_L-asparaginase_I_1410731..1410961_NEGATIVE 249 217 178 167 127 NC_003454:FN0447|5end_NIFS_protein_1089343..1089573_POSITIVE 242 214 183 114 73 NC_003454:FN1968|5end_Hemin_transport_system_ATP-binding_protein_hmuV_467189..467419_NEGATIVE 241 150 104 183 135 NC_003454:FN0764|5end_Transporter,_LysE_family_1420327..1420557_POSITIVE 240 217 177 221 175 NC_003454:FN0255|5end_Hypothetical_cytosolic_protein_881870..882100_POSITIVE 237 294 251 147 96 NC_003454:FN1949|5end_Xaa-Pro_dipeptidase_454922..455152_NEGATIVE 235 75 45 110 79 NC_003454:FN1765|5end_pyruvate_kinase_259450..259680_NEGATIVE 233 81 45 63 18 NC_003454:FN1222|5end_hypothetical_protein_1881969..1882199_NEGATIVE 233 97 51 109 63 NC_003454:FN0575|5end_hypothetical_protein_1225331..1225561_POSITIVE 233 97 51 157 115 NC_003454:FN0068|5end_Lipoprotein_signal_peptidase_707308..707538_POSITIVE 232 111 87 41 10 NC_003454:FN1017|5end_hypothetical_protein_1671266..1671496_POSITIVE 232 210 167 137 99 NC_003454:FN1517|5end_Leucyl-tRNA_synthetase_23455..23685_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 262 208 161 88 37 NC_003454:FN1475|3end_N-acetylneuraminate_lyase_2158737..2158887_POSITIVE 256 138 91 151 109 NC_003454:FN1253|3end_hypothetical_protein_1910229..1910379_NEGATIVE 255 209 161 98 40 NC_003454:FN1368|3end_COMF_operon_protein_3_2018157..2018307_NEGATIVE 251 130 89 63 21 NC_003454:FN0668|3end_High-affinity_zinc_uptake_system_protein_znuA_precursor_1324987..1325137_POSITIVE 249 217 178 148 108 NC_003454:FN0446|3end_hypothetical_protein_1089404..1089554_POSITIVE 242 214 183 117 76 NC_003454:FN1969|3end_Hemin_transport_system_permease_protein_hmuU_467186..467336_NEGATIVE 241 214 180 151 113 NC_003454:FN1835|3end_hypothetical_protein_323315..323465_NEGATIVE 233 81 45 48 3 NC_003454:FN1223|3end_Dihydropteridine_reductase_1881984..1882134_NEGATIVE 232 111 87 44 13 NC_003454:FN1016|3end_Lipid_A_biosynthesis_lauroyl_acyltransferase_1671349..1671499_POSITIVE 232 210 167 129 91 NC_003454:FN1518|3end_RNA_polymerase_sigma-70_factor_23463..23613_NEGATIVE 231 130 85 54 13 NC_003454:FN0795|3end_CBS_domain_containing_protein_1453076..1453226_POSITIVE 228 129 87 145 100 NC_003454:FN0904|3end_NAD(FAD)-utilizing_dehydrogenase_1563760..1563910_POSITIVE 226 220 179 139 103 NC_003454:FN1326|3end_Undecaprenyl_pyrophosphate_synthetase_1981198..1981348_NEGATIVE 223 80 33 101 56 NC_003454:FN0475|3end_MIAB_protein_1123507..1123657_POSITIVE 219 100 51 139 101 NC_003454:FN0043|3end_Hypothetical_exported_24-amino_acid_repeat_protein_682818..682968_POSITIVE 216 68 37 124 93 NC_003454:FN0265|3end_Cell_division_protein_ftsX_892410..892560_POSITIVE 216 126 86 93 58 NC_003454:FN1632|3end_LSU_ribosomal_protein_L5P_135268..135418_NEGATIVE 215 190 147 142 105 NC_003454:FN0858|3end_4-alpha-glucanotransferase_1518987..1519137_NEGATIVE 215 110 67 132 88 NC_003454:FN0589|3end_Transcriptional_regulator,_MarR_family_1242833..1242983_POSITIVE 214 150 102 150 98 NC_003454:FN1973|3end_Translation_initiation_inhibitor_472230..472380_NEGATIVE