Origin IGS: attgattcacctcctctttttcctaaaaatatacccctattgcaaagaacaggggttgagtttgaggttagtatatctaacttccaacctcggtaggttatttaaggattatctccccctacggtctttggtttggatttatattcaatttaa .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ttaaattgaatataaatccaaaccaaagaccgtagggggagataatccttaaataacctaccgaggttggaagttagatatactaacctcaaactcaacccctgttctttgcaataggggtatatttttaggaaaaagaggaggtgaatcaat Mask Tandem Repeat Region ================================================ attgattcacctcctctttttcctaaaaatatacccctattgcaaagaacaggggttgagtttgaggttagtatatctaacttccaacctcggtaggttatttaaggattatctccccctacggtctttggtttggatttatattcaatttaa Find is-nt database================================================ Query_seq: FN2038:FN2039|FN2038:FN2039:LSU ribosomal protein L10P:50S ribosomal protein L1:<-<-:547787..547939 153 attgattcacctcctctttttcctaaaaatatacccctattgcaaagaacaggggttgagtttgaggttagtatatctaacttccaacctcggtaggttatttaaggattatctccccctacggtctttggtttggatttatattcaatttaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN2038:FN2039|FN2038:FN2039:LSU ribosomal protein L10P:50S ribosomal protein L1:<-<-:547787..547939 153 attgattcacctcctctttttcctaaaaatatacccctattgcaaagaacaggggttgagtttgaggttagtatatctaacttccaacctcggtaggttatttaaggattatctccccctacggtctttggtttggatttatattcaatttaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN2038:FN2039|FN2038:FN2039:LSU ribosomal protein L10P:50S ribosomal protein L1:<-<-:547787..547939 153 attgattcacctcctctttttcctaaaaatatacccctattgcaaagaacaggggttgagtttgaggttagtatatctaacttccaacctcggtaggttatttaaggattatctccccctacggtctttggtttggatttatattcaatttaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 attgattcacctcctctttttcctaaaaatatacccctattgcaaagaacaggggttgagtttgaggttagtatatctaacttccaacctcggtaggttatttaaggattatctccccctacggtctttggtttggatttatattcaatttaa Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: + Start: 1 End: 93 M D S P P L F P K N I P L L Q R T G V E F E V S I S N F Q P R ............................................................ Protein_Len: 50 Strand: + Start: 2 End: 151 . M I H L L F F L K I Y P Y C K E Q G L S L R L V Y L T S N L G R L F K D Y L P L R S L V W I Y I Q F .. Protein_Len: 33 Strand: - Start: 3 End: 101 .. S E G G R K G L F I G R N C L V P T S N S T L I D L K W G R Y T M .................................................... attgattcacctcctctttttcctaaaaatatacccctattgcaaagaacaggggttgagtttgaggttagtatatctaacttccaacctcggtaggttatttaaggattatctccccctacggtctttggtttggatttatattcaatttaa 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================================================ attgattcacctcctctttttcctaaaaatatacccctattgcaaagaacaggggttgagtttgaggttagtatatctaacttccaacctcggtaggttatttaaggattatctccccctacggtctttggtttggatttatattcaatttaa Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 57 HP_score: -4.0 Tail_Score: -3.90048 Start: 32 End: 57 Full_Region: actaacctcaaactc aacccctgtt ctttgc aataggggta tatttttaggaaaaa ...............................aacccctgttctttgcaataggggta................................................................................................ Find igs database================================================ Query_seq: FN2038:FN2039|FN2038:FN2039:LSU ribosomal protein L10P:50S ribosomal protein L1:<-<-:547787..547939 153 attgattcacctcctctttttcctaaaaatatacccctattgcaaagaacaggggttgagtttgaggttagtatatctaacttccaacctcggtaggttatttaaggattatctccccctacggtctttggtttggatttatattcaatttaa Intra-Species Hit: Count: 1 Min: 1 Max: 153 Len: 153 Subject: NC_003454_FN2038_FN2039|LSU ribosomal protein L10P:50S ribosomal protein L1|NEGATIVE:NEGATIVE|[547787,547939]|153 HSP 1 e-value: 9.0E-82 bit: 303.0 Len: 153 Query Start:1 Query End:153 Subject Strand: POSITIVE Subject Start: 1 Subject End: 153 attgattcacctcctctttttcctaaaaatatacccctattgcaaagaacaggggttgagtttgaggttagtatatctaacttccaacctcggtaggttatttaaggattatctccccctacggtctttggtttggatttatattcaatttaa attgattcacctcctctttttcctaaaaatatacccctattgcaaagaacaggggttgagtttgaggttagtatatctaacttccaacctcggtaggttatttaaggattatctccccctacggtctttggtttggatttatattcaatttaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUGAUUCACCUCCUCUUUUUCCUAAAAAUAUACCCCUAUUGCAAAGAACAGGGGUUGAGUUUGAGGUUAGUAUAUCUAACUUCCAACCUCGGUAGGUUAUUUAAGGAUUAUCUCCCCCUACGGUCUUUGGUUUGGAUUUAUAUUCAAUUUAA (((((...((((((((................((((((.((......)).)))))).)))...)))))..(((.((((((...((((...(.(((((........(((.....))).))))).)...)))).)))))).)))..))))).... (-32.43) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUAAAUUGAAUAUAAAUCCAAACCAAAGACCGUAGGGGGAGAUAAUCCUUAAAUAACCUACCGAGGUUGGAAGUUAGAUAUACUAACCUCAAACUCAACCCCUGUUCUUUGCAAUAGGGGUAUAUUUUUAGGAAAAAGAGGAGGUGAAUCAAU ....(((((...((..(((................(((((.....)))))......((((..((((((((............)))))))).......(((((((((......))))))))).......)))).......)))..))..))))) (-37.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 934 130 81 221 172 NC_003454:FN2038|5end_LSU_ribosomal_protein_L10P_547696..547926_NEGATIVE 364 137 92 157 115 NC_003454:FN2042|5end_Protein_translocase_subunit_SecE_549832..550062_NEGATIVE 266 42 7 69 33 NC_003454:FN1495|5end_hypothetical_protein_2174410..2174640_NEGATIVE 266 42 7 93 57 NC_003454:FN1494|5end_Rod_shape-determining_protein_mreC_2174386..2174616_NEGATIVE 261 48 6 141 96 NC_003454:FN1364|5end_LSU_ribosomal_protein_L32P_2015561..2015791_NEGATIVE 260 120 79 108 54 NC_003454:FN0596|5end_hypothetical_protein_1250001..1250231_POSITIVE 242 98 55 56 15 NC_003454:FN1917|5end_tRNA_delta(2)-isopentenylpyrophosphate_transferase_413756..413986_NEGATIVE 231 128 92 206 177 NC_003454:FN1426|5end_Serine_protease_2095462..2095692_NEGATIVE 225 57 12 79 27 NC_003454:FN0661|5end_hypothetical_protein_1317729..1317959_POSITIVE 219 110 76 80 38 NC_003454:FN0751|5end_L-asparaginase_I_1410731..1410961_NEGATIVE 216 142 105 91 45 NC_003454:FN0342|5end_Peptidyl-prolyl_cis-trans_isomerase_975925..976155_NEGATIVE 214 38 5 137 86 NC_003454:FN1780|5end_hypothetical_protein_261664..261894_NEGATIVE 214 59 11 159 98 NC_003454:FN1697|5end_hypothetical_protein_193685..193915_NEGATIVE 211 44 10 139 102 NC_003454:FN0584|5end_hypothetical_protein_1239444..1239674_POSITIVE 208 48 9 207 162 NC_003454:FN1381|5end_hypothetical_protein_2032434..2032664_NEGATIVE 208 120 82 155 127 NC_003454:FN0940|5end_hypothetical_protein_1593508..1593738_NEGATIVE 207 98 51 216 167 NC_003454:FN0315|5end_Transcriptional_regulator,_AraC_family_951934..952164_POSITIVE 206 97 51 194 132 NC_003454:FN1283|5end_DNA-directed_RNA_polymerase_alpha_subunit_1942675..1942905_NEGATIVE 206 69 27 123 79 NC_003454:FN0514|5end_hypothetical_protein_1163431..1163661_POSITIVE 204 150 108 93 30 NC_003454:FN1092|5end_hypothetical_protein_1737267..1737497_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 266 42 7 68 32 NC_003454:FN1495|3end_hypothetical_protein_-89..61_NEGATIVE 261 48 6 57 12 NC_003454:FN1365|3end_GTP-binding_protein_2015645..2015795_NEGATIVE 260 120 79 108 54 NC_003454:FN0595|3end_UDP-N-acetylglucosamine_acyltransferase_1250081..1250231_POSITIVE 251 137 106 32 3 NC_003454:FN2044|3end_LSU_ribosomal_protein_L33P_549957..550107_NEGATIVE 242 98 55 72 31 NC_003454:FN1918|3end_SPO0B-associated_GTP-binding_protein_413740..413890_NEGATIVE 236 114 76 146 115 NC_003454:FN1287|3end_Bacterial_Protein_Translation_Initiation_Factor_1_(IF-1)_1944415..1944565_NEGATIVE 219 110 76 90 48 NC_003454:FN0752|3end_Proline_iminopeptidase_1410721..1410871_NEGATIVE 214 38 5 69 18 NC_003454:FN1781|3end_LytB_protein_261732..261882_NEGATIVE 214 59 11 147 86 NC_003454:FN1698|3end_dTDP-4-dehydrorhamnose_reductase_193697..193847_NEGATIVE 211 44 10 133 96 NC_003454:FN0583|3end_hypothetical_protein_1239518..1239668_POSITIVE 208 120 82 136 108 NC_003454:FN0941|3end_Gamma-glutamyltranspeptidase_1593527..1593677_NEGATIVE 207 98 51 133 84 NC_003454:FN0314|3end_Caffeoyl-CoA_O-methyltransferase_951931..952081_POSITIVE 204 150 108 84 21 NC_003454:FN1091|3end_Sigma_factor_sigB_regulation_protein_rsbU_1737338..1737488_POSITIVE 200 49 10 120 75 NC_003454:FN1452|3end_Cell_division_protein_ftsA_2132733..2132883_NEGATIVE 200 68 25 43 3 NC_003454:FN0699|3end_Protein_translocase_subunit_secD_1358366..1358516_POSITIVE 199 43 15 84 56 NC_003454:FN0065|3end_Transcription_accessory_protein_(S1_RNA_binding_domain)_702184..702334_POSITIVE 195 59 12 55 16 NC_003454:FN0247|3end_Hypothetical_cytosolic_protein_871578..871728_POSITIVE 195 141 114 107 75 NC_003454:FN0091|3end_Phosphoserine_phosphatase_727968..728118_POSITIVE 194 44 10 142 105 NC_003454:FN0715|3end_hypothetical_protein_1374056..1374206_POSITIVE 194 100 60 130 80 NC_003454:FN0254|3end_Fusobacterium_outer_membrane_protein_family_881390..881540_POSITIVE