Origin IGS: atggttggggattttggcaacaaatcgcttttattgccaaaatccccaatccatatttctgttcagagggtctaacttctgaactttcaatagtaagacaacct .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aggttgtcttactattgaaagttcagaagttagaccctctgaacagaaatatggattggggattttggcaataaaagcgatttgttgccaaaatccccaaccat Mask Tandem Repeat Region ================================================ atggttggggattttggcaacaaatcgcttttattgccaaaatccccaatccatatttctgttcagagggtctaacttctgaactttcaatagtaagacaacct Find is-nt database================================================ Query_seq: PG0847:PG0848|PG0847:PG0848:hypothetical protein:hypothetical protein:-><-:909475..909578 104 atggttggggattttggcaacaaatcgcttttattgccaaaatccccaatccatatttctgttcagagggtctaacttctgaactttcaatagtaagacaacct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG0847:PG0848|PG0847:PG0848:hypothetical protein:hypothetical protein:-><-:909475..909578 104 atggttggggattttggcaacaaatcgcttttattgccaaaatccccaatccatatttctgttcagagggtctaacttctgaactttcaatagtaagacaacct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG0847:PG0848|PG0847:PG0848:hypothetical protein:hypothetical protein:-><-:909475..909578 104 atggttggggattttggcaacaaatcgcttttattgccaaaatccccaatccatatttctgttcagagggtctaacttctgaactttcaatagtaagacaacct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 atggttggggattttggcaacaaatcgcttttattgccaaaatccccaatccatatttctgttcagagggtctaacttctgaactttcaatagtaagacaacct Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: - Start: 2 End: 91 . P Q P N Q C C I A K I A L I G L G Y K Q E S P R V E S S E M ............. atggttggggattttggcaacaaatcgcttttattgccaaaatccccaatccatatttctgttcagagggtctaacttctgaactttcaatagtaagacaacct 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================================================ atggttggggattttggcaacaaatcgcttttattgccaaaatccccaatccatatttctgttcagagggtctaacttctgaactttcaatagtaagacaacct Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 68 HP_score: -7.5 Tail_Score: -3.68351 Start: 61 End: 84 Full_Region: CCAATCCATATTTCT GTTCAGAGG GTCTAA CTTCTGAAC TTTCAATAGTAAGAC ............................................................GTTCAGAGGGTCTAACTTCTGAAC.................... Find igs database================================================ Query_seq: PG0847:PG0848|PG0847:PG0848:hypothetical protein:hypothetical protein:-><-:909475..909578 104 atggttggggattttggcaacaaatcgcttttattgccaaaatccccaatccatatttctgttcagagggtctaacttctgaactttcaatagtaagacaacct Intra-Species Hit: Count: 1 Min: 1 Max: 104 Len: 104 Subject: NC_002950_PG0847_PG0848|hypothetical protein:hypothetical protein|POSITIVE:NEGATIVE|[909475,909578]|104 HSP 1 e-value: 1.0E-52 bit: 206.0 Len: 104 Query Start:1 Query End:104 Subject Strand: POSITIVE Subject Start: 1 Subject End: 104 atggttggggattttggcaacaaatcgcttttattgccaaaatccccaatccatatttctgttcagagggtctaacttctgaactttcaatagtaagacaacct atggttggggattttggcaacaaatcgcttttattgccaaaatccccaatccatatttctgttcagagggtctaacttctgaactttcaatagtaagacaacct Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUGGUUGGGGAUUUUGGCAACAAAUCGCUUUUAUUGCCAAAAUCCCCAAUCCAUAUUUCUGUUCAGAGGGUCUAACUUCUGAACUUUCAAUAGUAAGACAACCU ((((((((((((((((((((.(((.....))).)))))))))))))))).))))......(((((((((......))))))))).................... (-44.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGGUUGUCUUACUAUUGAAAGUUCAGAAGUUAGACCCUCUGAACAGAAAUAUGGAUUGGGGAUUUUGGCAAUAAAAGCGAUUUGUUGCCAAAAUCCCCAACCAU (((..((((.(((.((((....)))).))).)))))))............((((.((((((((((((((((((((.....)))))))))))))))))))))))) (-43.90) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 295 74 35 151 102 NC_002950:PG1351|5end_hypothetical_protein_1432744..1432974_NEGATIVE 284 45 3 187 144 NC_002950:PG1696|5end_type_II_DNA_modification_methyltransferase,_putative_1779973..1780203_POSITIVE 280 38 1 106 67 NC_002950:PG1675|5end_hypothetical_protein_1760182..1760412_POSITIVE 279 66 25 195 155 NC_002950:PG0803|5end_glucosamine-6-phosphate_deaminase_860518..860748_NEGATIVE 275 72 34 203 166 NC_002950:PG1702|5end_DNA_gyrase,_B_subunit_1789910..1790140_NEGATIVE 272 59 14 227 173 NC_002950:PG0116|5end_hypothetical_protein_138469..138699_POSITIVE 268 69 26 200 164 NC_002950:PG2075|5end_hypothetical_protein_2176466..2176696_NEGATIVE 266 37 4 80 56 NC_002950:PG2003|5end_deoxyguanosinetriphosphate_triphosphohydrolase_2092991..2093221_NEGATIVE 263 38 6 95 66 NC_002950:PG1762|5end_protein-export_membrane_protein_SecD/protein-export_membrane_protein_SecF_1847988..1848218_POSITIVE 260 85 41 56 8 NC_002950:PG0267|5end_arginyl-tRNA_synthetase_299100..299330_POSITIVE 259 78 32 125 81 NC_002950:PG1302|5end_hypothetical_protein_1380637..1380867_NEGATIVE 254 69 21 199 136 NC_002950:PG0778|5end_hypothetical_protein_831869..832099_NEGATIVE 254 40 1 127 84 NC_002950:PG0607|5end_hypothetical_protein_662552..662782_POSITIVE 248 83 41 177 135 NC_002950:PG1056|5end_hypothetical_protein_1122980..1123210_POSITIVE 247 81 44 218 171 NC_002950:PG0339|5end_hypothetical_protein_375062..375292_POSITIVE 246 67 27 68 27 NC_002950:PG2144|5end_hypothetical_protein_2249911..2250141_POSITIVE 246 80 50 66 30 NC_002950:PG1784|5end_hypothetical_protein_1872566..1872796_POSITIVE 244 57 15 158 119 NC_002950:PG0633|5end_hypothetical_protein_685301..685531_POSITIVE 243 73 36 57 27 NC_002950:PG1362|5end_hypothetical_protein_1443594..1443824_NEGATIVE 241 38 6 149 106 NC_002950:PG0526|5end_putative_inner_membrane_protein_translocase_component_YidC_570746..570976_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 527 49 1 86 37 NC_002950:PG0847|3end_hypothetical_protein_909414..909564_POSITIVE 291 48 6 140 102 NC_002950:PG1416|3end_enoyl-(acyl-carrier-protein)_reductase_II_1501078..1501228_POSITIVE 283 47 1 72 25 NC_002950:PG1968|3end_hypothetical_protein_2058460..2058610_NEGATIVE 277 60 14 149 101 NC_002950:PG0804|3end_flavodoxin_860557..860707_NEGATIVE 275 72 34 145 108 NC_002950:PG1703|3end_MazG_family_protein_1789968..1790118_NEGATIVE 274 49 1 70 18 NC_002950:PG0435|3end_capsular_polysaccharide_biosythesis_protein,_putative_472708..472858_NEGATIVE 264 53 16 35 3 NC_002950:PG2050|3end_hypothetical_protein_2149159..2149309_NEGATIVE 259 49 6 145 101 NC_002950:PG0003|3end_hypothetical_protein_1919..2069_NEGATIVE 256 47 3 114 74 NC_002950:PG2036|3end_ion_transporter_2137552..2137702_POSITIVE 256 72 35 75 31 NC_002950:PG0068|3end_hypothetical_protein_82079..82229_POSITIVE 252 69 35 150 109 NC_002950:PG1352|3end_hypothetical_protein_1432737..1432887_NEGATIVE 251 66 27 131 97 NC_002950:PG1205|3end_DNA-binding_protein,_histone-like_family_1284503..1284653_POSITIVE 246 80 50 78 42 NC_002950:PG1783|3end_glycosyl_transferase,_group_2_family_protein_1872658..1872808_POSITIVE 246 69 25 71 17 NC_002950:PG1449|3end_hypothetical_protein_1533582..1533732_NEGATIVE 246 69 25 88 34 NC_002950:PG1196|3end_hypothetical_protein_1275359..1275509_POSITIVE 246 69 25 71 17 NC_002950:PG0824|3end_hypothetical_protein_881930..882080_POSITIVE 239 70 26 57 25 NC_002950:PG0915|3end_hypothetical_protein_977057..977207_POSITIVE 236 89 42 137 96 NC_002950:PG0658|3end_phosphatase,_YrbI_family_707798..707948_NEGATIVE 236 45 7 84 44 NC_002950:PG0243|3end_hypothetical_protein_278976..279126_NEGATIVE 230 69 26 141 97 NC_002950:PG1794|3end_DNA_polymerase_type_I_1888838..1888988_POSITIVE