Origin IGS: agataaagcaacagttaaaatttctatttgtttcattctctgggtgatcttatccatttataactcctttagaattgttttcattaattatataatattttagaatttatatcaataatagaaaaggctattacaaaatgggtttgtaataacctcagtgacaaaaac .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 gtttttgtcactgaggttattacaaacccattttgtaatagccttttctattattgatataaattctaaaatattatataattaatgaaaacaattctaaaggagttataaatggataagatcacccagagaatgaaacaaatagaaattttaactgttgctttatct Mask Tandem Repeat Region ================================================ agataaagcaacagttaaaatttctatttgtttcattctctgggtgatcttatccatttataactcctttagaattgttttcattaattatataatattttagaatttatatcaataatagaaaaggctattacaaaatgggtttgtaataacctcagtgacaaaaac Find is-nt database================================================ Query_seq: FN0748:FN0749|FN0748:FN0749:hypothetical protein:hypothetical protein:<-<-:1407634..1407801 168 agataaagcaacagttaaaatttctatttgtttcattctctgggtgatcttatccatttataactcctttagaattgttttcattaattatataatattttagaatttatatcaataatagaaaaggctattacaaaatgggtttgtaataacctcagtgacaaaaac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN0748:FN0749|FN0748:FN0749:hypothetical protein:hypothetical protein:<-<-:1407634..1407801 168 agataaagcaacagttaaaatttctatttgtttcattctctgggtgatcttatccatttataactcctttagaattgttttcattaattatataatattttagaatttatatcaataatagaaaaggctattacaaaatgggtttgtaataacctcagtgacaaaaac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN0748:FN0749|FN0748:FN0749:hypothetical protein:hypothetical protein:<-<-:1407634..1407801 168 agataaagcaacagttaaaatttctatttgtttcattctctgggtgatcttatccatttataactcctttagaattgttttcattaattatataatattttagaatttatatcaataatagaaaaggctattacaaaatgggtttgtaataacctcagtgacaaaaac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 agataaagcaacagttaaaatttctatttgtttcattctctgggtgatcttatccatttataactcctttagaattgttttcattaattatataatattttagaatttatatcaataatagaaaaggctattacaaaatgggtttgtaataacctcagtgacaaaaac Predict ORF larger than 30AA ================================================ agataaagcaacagttaaaatttctatttgtttcattctctgggtgatcttatccatttataactcctttagaattgttttcattaattatataatattttagaatttatatcaataatagaaaaggctattacaaaatgggtttgtaataacctcagtgacaaaaac 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: 89 Start: 87 End: 116 ......................................................................................ATTGATATAAATTCTAAAATATTATATAAT.................................................... PromScan Matrix: RpoD-17 Strand: + Score: 85 Start: 67 End: 96 ..................................................................CTTTAGAATTGTTTTCATTAATTATATAAT........................................................................ PromScan Matrix: RpoD-17 Strand: + Score: 82 Start: 77 End: 106 ............................................................................GTTTTCATTAATTATATAATATTTTAGAAT.............................................................. PromScan Matrix: RpoD-17 Strand: - Score: 81 Start: 97 End: 126 ................................................................................................CTTTTCTATTATTGATATAAATTCTAAAAT.......................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ agataaagcaacagttaaaatttctatttgtttcattctctgggtgatcttatccatttataactcctttagaattgttttcattaattatataatattttagaatttatatcaataatagaaaaggctattacaaaatgggtttgtaataacctcagtgacaaaaac Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: FN0748:FN0749|FN0748:FN0749:hypothetical protein:hypothetical protein:<-<-:1407634..1407801 168 agataaagcaacagttaaaatttctatttgtttcattctctgggtgatcttatccatttataactcctttagaattgttttcattaattatataatattttagaatttatatcaataatagaaaaggctattacaaaatgggtttgtaataacctcagtgacaaaaac Intra-Species Hit: Count: 1 Min: 1 Max: 168 Len: 168 Subject: NC_003454_FN0748_FN0749|hypothetical protein:hypothetical protein|NEGATIVE:NEGATIVE|[1407634,1407801]|168 HSP 1 e-value: 1.0E-90 bit: 333.0 Len: 168 Query Start:1 Query End:168 Subject Strand: POSITIVE Subject Start: 1 Subject End: 168 agataaagcaacagttaaaatttctatttgtttcattctctgggtgatcttatccatttataactcctttagaattgttttcattaattatataatattttagaatttatatcaataatagaaaaggctattacaaaatgggtttgtaataacctcagtgacaaaaac agataaagcaacagttaaaatttctatttgtttcattctctgggtgatcttatccatttataactcctttagaattgttttcattaattatataatattttagaatttatatcaataatagaaaaggctattacaaaatgggtttgtaataacctcagtgacaaaaac Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGAUAAAGCAACAGUUAAAAUUUCUAUUUGUUUCAUUCUCUGGGUGAUCUUAUCCAUUUAUAACUCCUUUAGAAUUGUUUUCAUUAAUUAUAUAAUAUUUUAGAAUUUAUAUCAAUAAUAGAAAAGGCUAUUACAAAAUGGGUUUGUAAUAACCUCAGUGACAAAAAC .............((((...((((((((((....(((((.((((((....))))))...............(((.....)))...................)))))......))..)))))))).((.(((((((((.....))))))))).))....))))...... (-22.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUUUUUGUCACUGAGGUUAUUACAAACCCAUUUUGUAAUAGCCUUUUCUAUUAUUGAUAUAAAUUCUAAAAUAUUAUAUAAUUAAUGAAAACAAUUCUAAAGGAGUUAUAAAUGGAUAAGAUCACCCAGAGAAUGAAACAAAUAGAAAUUUUAACUGUUGCUUUAUCU (((((..((.(((.((((((((((((.....))))))))))))...........((((......((((...(((((......))))).....(((((.....))))).....))))....))))..))).))..))))).(((((.........)))))......... (-27.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 764 70 21 161 112 NC_003454:FN0748|5end_hypothetical_protein_1407543..1407773_NEGATIVE 269 76 31 140 86 NC_003454:FN0950|5end_Precorrin-6X_reductase_1607775..1608005_NEGATIVE 268 70 22 105 58 NC_003454:FN0980|5end_hypothetical_protein_1632478..1632708_POSITIVE 256 84 41 116 76 NC_003454:FN1713|5end_tRNA_(Uracil-5-)_-methyltransferase_207494..207724_POSITIVE 242 67 25 132 92 NC_003454:FN1026|5end_tRNA_pseudouridine_synthase_A_1680823..1681053_NEGATIVE 239 88 45 50 1 NC_003454:FN0187|5end_Thiol:disulfide_interchange_protein_tlpA_811590..811820_POSITIVE 233 68 21 137 91 NC_003454:FN2047|5end_Fusobacterium_outer_membrane_protein_family_556383..556613_NEGATIVE 229 41 9 61 31 NC_003454:FN0366|5end_Phosphoacetylglucosamine_mutase_996366..996596_NEGATIVE 225 85 43 67 30 NC_003454:FN0701|5end_Methyltransferase_1359261..1359491_POSITIVE 223 73 31 108 51 NC_003454:FN2078|5end_Transcriptional_regulator,_DeoR_family_590266..590496_NEGATIVE 213 79 34 56 11 NC_003454:FN2126|5end_DNA_gyrase_subunit_B_638225..638455_NEGATIVE 212 70 25 154 103 NC_003454:FN1893|5end_Fusobacterium_outer_membrane_protein_family_378497..378727_NEGATIVE 212 67 21 136 85 NC_003454:FN1519|5end_23S_rRNA_methyltransferase_24792..25022_NEGATIVE 210 87 48 186 144 NC_003454:FN0824|5end_Transcriptional_regulator,_DeoR_family_1484188..1484418_POSITIVE 210 69 22 173 116 NC_003454:FN0346|5end_hypothetical_protein_979267..979497_NEGATIVE 208 71 48 231 205 NC_003454:FN1430|5end_Branched-chain_amino_acid_transport_system_permease_protein_livM_2099202..2099432_NEGATIVE 208 59 20 164 126 NC_003454:FN1873|5end_Bis(5'-nucleosyl)-tetraphosphatase_363440..363670_NEGATIVE 207 90 49 189 149 NC_003454:FN1318|5end_RNA_polymerase_sigma_factor_rpoD_1972096..1972326_NEGATIVE 207 74 32 56 6 NC_003454:FN2107|5end_galactokinase_618150..618380_POSITIVE 207 70 49 104 83 NC_003454:FN1803|5end_Transcriptional_regulator,_TetR_family_284214..284444_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 268 70 22 91 44 NC_003454:FN0979|3end_hypothetical_protein_1632544..1632694_POSITIVE 268 156 122 84 42 NC_003454:FN0637|3end_Hypothetical_exported_24-amino_acid_repeat_protein_1295636..1295786_NEGATIVE 256 84 41 150 110 NC_003454:FN1712|3end_hypothetical_protein_207608..207758_POSITIVE 255 59 21 148 109 NC_003454:FN0951|3end_Precorrin-3B_C17-methyltransferase_1607747..1607897_NEGATIVE 248 157 118 50 10 NC_003454:FN1984|3end_Glutaredoxin-like_protein_487204..487354_POSITIVE 247 156 117 79 35 NC_003454:FN0515|3end_Acriflavin_resistance_protein_D_1163938..1164088_NEGATIVE 242 67 25 132 92 NC_003454:FN1027|3end_Rod_shape-determining_protein_rodA_1680823..1680973_NEGATIVE 229 83 48 118 81 NC_003454:FN1431|3end_Branched-chain_amino_acid_transport_system_permease_protein_livH_2099326..2099476_NEGATIVE 229 41 9 44 14 NC_003454:FN0367|3end_Integral_membrane_protein_996383..996533_NEGATIVE 225 85 43 45 8 NC_003454:FN0700|3end_Protein_translocase_subunit_secF_1359319..1359469_POSITIVE 224 155 116 71 35 NC_003454:FN1392|3end_SSU_ribosomal_protein_S16P_2049196..2049346_NEGATIVE 213 79 34 55 10 NC_003454:FN2127|3end_hypothetical_protein_638226..638376_NEGATIVE 212 67 21 126 75 NC_003454:FN1520|3end_UDP-N-acetylglucosamine_1-carboxyvinyltransferase_24802..24952_NEGATIVE 210 156 120 66 15 NC_003454:FN0528|3end_Cold_shock_protein_1184746..1184896_POSITIVE 208 59 20 151 113 NC_003454:FN1874|3end_Ribose_5-phosphate_isomerase_363453..363603_NEGATIVE 206 57 12 118 73 NC_003454:FN1237|3end_Choline_kinase_1893453..1893603_NEGATIVE 206 93 54 58 13 NC_003454:FN0311|3end_anaerobic_ribonucleoside_triphosphate_reductase_949391..949541_POSITIVE 204 80 35 101 56 NC_003454:FN0089|3end_Ethanolamine_permease_726384..726534_POSITIVE 202 66 21 91 41 NC_003454:FN0075|3end_Ethanolamine_utilization_protein_eutP_714216..714366_POSITIVE 202 57 27 53 23 NC_003454:FN0041|3end_hypothetical_protein_680619..680769_NEGATIVE