Origin IGS: ttttattttatgatagtatatgataaatttttttaaggaggaattattttatgaagaagatttttagttatatagtattaagttttgcattaataatgtta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taacattattaatgcaaaacttaatactatataactaaaaatcttcttcataaaataattcctccttaaaaaaatttatcatatactatcataaaataaaa Mask Tandem Repeat Region ================================================ ttttattttatgatagtatatgataaatttttttaaggaggaattattttatgaagaagatttttagttatatagtattaagttttgcattaataatgtta Find is-nt database================================================ Query_seq: FN0687:FN0688|FN0687:FN0688:hypothetical protein:hypothetical protein:->->:1344107..1344207 101 ttttattttatgatagtatatgataaatttttttaaggaggaattattttatgaagaagatttttagttatatagtattaagttttgcattaataatgtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN0687:FN0688|FN0687:FN0688:hypothetical protein:hypothetical protein:->->:1344107..1344207 101 ttttattttatgatagtatatgataaatttttttaaggaggaattattttatgaagaagatttttagttatatagtattaagttttgcattaataatgtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN0687:FN0688|FN0687:FN0688:hypothetical protein:hypothetical protein:->->:1344107..1344207 101 ttttattttatgatagtatatgataaatttttttaaggaggaattattttatgaagaagatttttagttatatagtattaagttttgcattaataatgtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttttattttatgatagtatatgataaatttttttaaggaggaattattttatgaagaagatttttagttatatagtattaagttttgcattaataatgtta Predict ORF larger than 30AA ================================================ ttttattttatgatagtatatgataaatttttttaaggaggaattattttatgaagaagatttttagttatatagtattaagttttgcattaataatgtta 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================================================ ttttattttatgatagtatatgataaatttttttaaggaggaattattttatgaagaagatttttagttatatagtattaagttttgcattaataatgtta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: FN0687:FN0688|FN0687:FN0688:hypothetical protein:hypothetical protein:->->:1344107..1344207 101 ttttattttatgatagtatatgataaatttttttaaggaggaattattttatgaagaagatttttagttatatagtattaagttttgcattaataatgtta Intra-Species Hit: Count: 1 Min: 1 Max: 101 Len: 101 Subject: NC_003454_FN0687_FN0688|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[1344107,1344207]|101 HSP 1 e-value: 2.0E-38 bit: 159.0 Len: 101 Query Start:1 Query End:101 Subject Strand: POSITIVE Subject Start: 1 Subject End: 101 ttttattttatgatagtatatgataaannnnnnnaaggaggaattattttatgaagaagatttttagttatatagtattaagttttgcattaataatgtta ttttattttatgatagtatatgataaatttttttaaggaggaattattttatgaagaagatttttagttatatagtattaagttttgcattaataatgtta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUUAUUUUAUGAUAGUAUAUGAUAAAUUUUUUUAAGGAGGAAUUAUUUUAUGAAGAAGAUUUUUAGUUAUAUAGUAUUAAGUUUUGCAUUAAUAAUGUUA ..........(((((.((((((((((((((((((...((((.....))))...))))))))))...)))))))).)))))......((((.....)))).. (-14.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAACAUUAUUAAUGCAAAACUUAAUACUAUAUAACUAAAAAUCUUCUUCAUAAAAUAAUUCCUCCUUAAAAAAAUUUAUCAUAUACUAUCAUAAAAUAAAA ......((((((........))))))........................................................................... ( -0.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 230 69 21 226 179 NC_003454:FN1129|5end_Chromosome_partition_protein_smc_1774204..1774434_POSITIVE 192 47 3 221 173 NC_003454:FN0633|5end_Replication_protein_1290928..1291158_POSITIVE 170 59 35 44 19 NC_003454:FN1018|5end_hypothetical_protein_1672369..1672599_NEGATIVE 169 56 11 179 128 NC_003454:FN1814|5end_hypothetical_protein_295270..295500_NEGATIVE 168 68 33 71 39 NC_003454:FN2000|5end_HIPA_protein_500786..501016_POSITIVE 164 59 19 198 163 NC_003454:FN2083|5end_hypothetical_protein_595642..595872_NEGATIVE 163 69 24 164 118 NC_003454:FN1904|5end_Transcriptional_regulator,_MarR_family_393107..393337_POSITIVE 162 50 3 217 166 NC_003454:FN0821|5end_hypothetical_protein_1480859..1481089_POSITIVE 161 58 15 207 161 NC_003454:FN0122|5end_hypothetical_protein_753401..753631_POSITIVE 160 45 17 43 16 NC_003454:FN1425|5end_hypothetical_protein_2091911..2092141_POSITIVE 159 69 33 167 133 NC_003454:FN1990|5end_Tetratricopeptide_repeat_protein_494085..494315_POSITIVE 157 41 11 195 160 NC_003454:FN2084|5end_Permease_595708..595938_POSITIVE 156 75 37 215 185 NC_003454:FN0691|5end_hypothetical_protein_1346372..1346602_NEGATIVE 156 60 14 182 130 NC_003454:FN0588|5end_hypothetical_protein_1242402..1242632_NEGATIVE 154 46 3 42 1 NC_003454:FN1474|5end_N-acetylmannosamine_kinase_2156888..2157118_POSITIVE 154 99 51 187 136 NC_003454:FN1211|5end_Cell_division_protein_ftsI_1872756..1872986_NEGATIVE 152 89 51 179 141 NC_003454:FN1477|5end_Hypothetical_membrane-spanning_protein_2159504..2159734_POSITIVE 151 53 28 223 197 NC_003454:FN1285|5end_30S_ribosomal_protein_S11_1943672..1943902_NEGATIVE 151 83 46 180 137 NC_003454:FN0988|5end_phosphoribosylaminoimidazole-succinocarboxamide_synthase_1640968..1641198_NEGATIVE 151 65 31 168 136 NC_003454:FN1800|5end_Peptidyl-prolyl_cis-trans_isomerase_281630..281860_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 180 77 37 100 64 NC_003454:FN0620|3end_hypothetical_protein_1279819..1279969_POSITIVE 180 86 42 91 42 NC_003454:FN1679|3end_LPS_biosynthesis_protein_WbpG_174590..174740_NEGATIVE 169 90 43 147 90 NC_003454:FN0443|3end_hypothetical_protein_1082933..1083083_POSITIVE 168 68 33 74 42 NC_003454:FN1999|3end_HIPA_protein_500869..501019_POSITIVE 163 98 54 78 30 NC_003454:FN0211|3end_Plasmid_addiction_system_poison_protein_837570..837720_POSITIVE 162 50 3 97 46 NC_003454:FN0820|3end_Mercuric_reductase_1480819..1480969_POSITIVE 151 76 36 48 6 NC_003454:FN0099|3end_Inorganic_pyrophosphatase_735115..735265_POSITIVE 151 65 31 108 76 NC_003454:FN1799|3end_Spermidine/putrescine_transport_system_permease_protein_potC_281650..281800_POSITIVE 149 50 6 99 61 NC_003454:FN1477|3end_Hypothetical_membrane-spanning_protein_2160297..2160447_POSITIVE 149 52 27 143 113 NC_003454:FN1934|3end_hypothetical_protein_434266..434416_NEGATIVE 145 91 52 62 26 NC_003454:FN0538|3end_Protein_translocase_subunit_secG_1192151..1192301_POSITIVE 145 80 31 88 27 NC_003454:FN2003|3end_bioY_protein_504373..504523_POSITIVE 143 36 1 116 84 NC_003454:FN1136|3end_Phosphonates_transport_ATP-binding_protein_phnC_1783880..1784030_POSITIVE 142 69 35 83 50 NC_003454:FN1436|3end_Export_ABC_transporter_2105843..2105993_POSITIVE 142 79 37 74 30 NC_003454:FN0002|3end_Ribonuclease_P_protein_component_642963..643113_POSITIVE 138 100 51 92 47 NC_003454:FN0839|3end_hypothetical_protein_1501244..1501394_NEGATIVE 137 62 27 60 24 NC_003454:FN0937|3end_Gamma-polyglutamic_acid_synthetase_1589097..1589247_NEGATIVE 137 88 46 120 76 NC_003454:FN0929|3end_ATP/GTP_hydrolase_1583007..1583157_NEGATIVE 137 90 49 146 99 NC_003454:FN0649|3end_Exoenzyme_regulatory_protein_aepA_precursor_1306089..1306239_NEGATIVE 136 89 52 75 29 NC_003454:FN1816|3end_hypothetical_protein_296139..296289_NEGATIVE