Origin IGS: ttttacgtttaaattttcattttgctatctgtgctgtatcttctttaccactaaatatctaacaagatgtgagaaagtttgatagcacgaagataagaaatgggataatatatagtcgtcccttaagagtccttttaagagacgactaagtagcagttattaagtagattacaaagaaaatctctaatgactgccattagaaaagtaaggcctaacgacaaatccgggttaaaaatattcgggagtgttcgaaaaccgatagaatgcccctccatcgcttcgaagtacagagagaggggtatcgggagga .........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 tcctcccgatacccctctctctgtacttcgaagcgatggaggggcattctatcggttttcgaacactcccgaatatttttaacccggatttgtcgttaggccttacttttctaatggcagtcattagagattttctttgtaatctacttaataactgctacttagtcgtctcttaaaaggactcttaagggacgactatatattatcccatttcttatcttcgtgctatcaaactttctcacatcttgttagatatttagtggtaaagaagatacagcacagatagcaaaatgaaaatttaaacgtaaaa Mask Tandem Repeat Region ================================================ ttttacgtttaaattttcattttgctatctgtgctgtatcttctttaccactaaatatctaacaagatgtgagaaagtttgatagcacgaagataagaaatgggataatatatagtcgtcccttaagagtccttttaagagacgactaagtagcagttattaagtagattacaaagaaaatctctaatgactgccattagaaaagtaaggcctaacgacaaatccgggttaaaaatattcgggagtgttcgaaaaccgatagaatgcccctccatcgcttcgaagtacagagagaggggtatcgggagga Find is-nt database================================================ Query_seq: PG1358:PG1359|PG1358:PG1359:acetyltransferase, GNAT family:hypothetical protein:<-<-:1437424..1437733 310 ttttacgtttaaattttcattttgctatctgtgctgtatcttctttaccactaaatatctaacaagatgtgagaaagtttgatagcacgaagataagaaatgggataatatatagtcgtcccttaagagtccttttaagagacgactaagtagcagttattaagtagattacaaagaaaatctctaatgactgccattagaaaagtaaggcctaacgacaaatccgggttaaaaatattcgggagtgttcgaaaaccgatagaatgcccctccatcgcttcgaagtacagagagaggggtatcgggagga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG1358:PG1359|PG1358:PG1359:acetyltransferase, GNAT family:hypothetical protein:<-<-:1437424..1437733 310 ttttacgtttaaattttcattttgctatctgtgctgtatcttctttaccactaaatatctaacaagatgtgagaaagtttgatagcacgaagataagaaatgggataatatatagtcgtcccttaagagtccttttaagagacgactaagtagcagttattaagtagattacaaagaaaatctctaatgactgccattagaaaagtaaggcctaacgacaaatccgggttaaaaatattcgggagtgttcgaaaaccgatagaatgcccctccatcgcttcgaagtacagagagaggggtatcgggagga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG1358:PG1359|PG1358:PG1359:acetyltransferase, GNAT family:hypothetical protein:<-<-:1437424..1437733 310 ttttacgtttaaattttcattttgctatctgtgctgtatcttctttaccactaaatatctaacaagatgtgagaaagtttgatagcacgaagataagaaatgggataatatatagtcgtcccttaagagtccttttaagagacgactaagtagcagttattaagtagattacaaagaaaatctctaatgactgccattagaaaagtaaggcctaacgacaaatccgggttaaaaatattcgggagtgttcgaaaaccgatagaatgcccctccatcgcttcgaagtacagagagaggggtatcgggagga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttttacgtttaaattttcattttgctatctgtgctgtatcttctttaccactaaatatctaacaagatgtgagaaagtttgatagcacgaagataagaaatgggataatatatagtcgtcccttaagagtccttttaagagacgactaagtagcagttattaagtagattacaaagaaaatctctaatgactgccattagaaaagtaaggcctaacgacaaatccgggttaaaaatattcgggagtgttcgaaaaccgatagaatgcccctccatcgcttcgaagtacagagagaggggtatcgggagga Predict ORF larger than 30AA ================================================ Protein_Len: 41 Strand: + Start: 187 End: 309 .......................................................................................................................................................................................... M T A I R K V R P N D K S G L K I F G S V R K P I E C P S I A S K Y R E R G I G R . Protein_Len: 55 Strand: - Start: 138 End: 302 ......................................................................................................................................... S V V L Y C N N L L N C L F D R I V A M L F T L G L S L D P N F I N P L T R F G I S H G E M A E F Y L S L P M ........ Protein_Len: 43 Strand: - Start: 28 End: 156 ........................... R H Q I K K V V L Y R V L H S F T Q Y C S S L F H S L I Y D D R L L G K L L R S L L M .......................................................................................................................................................... ttttacgtttaaattttcattttgctatctgtgctgtatcttctttaccactaaatatctaacaagatgtgagaaagtttgatagcacgaagataagaaatgggataatatatagtcgtcccttaagagtccttttaagagacgactaagtagcagttattaagtagattacaaagaaaatctctaatgactgccattagaaaagtaaggcctaacgacaaatccgggttaaaaatattcgggagtgttcgaaaaccgatagaatgcccctccatcgcttcgaagtacagagagaggggtatcgggagga 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================================================ ttttacgtttaaattttcattttgctatctgtgctgtatcttctttaccactaaatatctaacaagatgtgagaaagtttgatagcacgaagataagaaatgggataatatatagtcgtcccttaagagtccttttaagagacgactaagtagcagttattaagtagattacaaagaaaatctctaatgactgccattagaaaagtaaggcctaacgacaaatccgggttaaaaatattcgggagtgttcgaaaaccgatagaatgcccctccatcgcttcgaagtacagagagaggggtatcgggagga Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 90 HP_score: -12.8 Tail_Score: -3.19234 Start: 113 End: 148 Full_Region: ttaataactgctact tagtcgtctcttaaaa ggac tcttaagggacgacta tatattatcccattt ................................................................................................................tagtcgtctcttaaaaggactcttaagggacgacta.................................................................................................................................................................. TransTerm Strand: - Conf: 82 HP_score: -6.4 Tail_Score: -5.03227 Start: 181 End: 203 Full_Region: tcgttaggccttact tttctaatgg cag tcattagaga ttttctttgtaatct ....................................................................................................................................................................................tttctaatggcagtcattagaga........................................................................................................... Find igs database================================================ Query_seq: PG1358:PG1359|PG1358:PG1359:acetyltransferase, GNAT family:hypothetical protein:<-<-:1437424..1437733 310 ttttacgtttaaattttcattttgctatctgtgctgtatcttctttaccactaaatatctaacaagatgtgagaaagtttgatagcacgaagataagaaatgggataatatatagtcgtcccttaagagtccttttaagagacgactaagtagcagttattaagtagattacaaagaaaatctctaatgactgccattagaaaagtaaggcctaacgacaaatccgggttaaaaatattcgggagtgttcgaaaaccgatagaatgcccctccatcgcttcgaagtacagagagaggggtatcgggagga Intra-Species Hit: Count: 1 Min: 1 Max: 310 Len: 310 Subject: NC_002950_PG1358_PG1359|acetyltransferase, GNAT family:hypothetical protein|NEGATIVE:NEGATIVE|[1437424,1437733]|310 HSP 1 e-value: 1.0E-175 bit: 615.0 Len: 310 Query Start:1 Query End:310 Subject Strand: POSITIVE Subject Start: 1 Subject End: 310 ttttacgtttaaattttcattttgctatctgtgctgtatcttctttaccactaaatatctaacaagatgtgagaaagtttgatagcacgaagataagaaatgggataatatatagtcgtcccttaagagtccttttaagagacgactaagtagcagttattaagtagattacaaagaaaatctctaatgactgccattagaaaagtaaggcctaacgacaaatccgggttaaaaatattcgggagtgttcgaaaaccgatagaatgcccctccatcgcttcgaagtacagagagaggggtatcgggagga ttttacgtttaaattttcattttgctatctgtgctgtatcttctttaccactaaatatctaacaagatgtgagaaagtttgatagcacgaagataagaaatgggataatatatagtcgtcccttaagagtccttttaagagacgactaagtagcagttattaagtagattacaaagaaaatctctaatgactgccattagaaaagtaaggcctaacgacaaatccgggttaaaaatattcgggagtgttcgaaaaccgatagaatgcccctccatcgcttcgaagtacagagagaggggtatcgggagga Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUUACGUUUAAAUUUUCAUUUUGCUAUCUGUGCUGUAUCUUCUUUACCACUAAAUAUCUAACAAGAUGUGAGAAAGUUUGAUAGCACGAAGAUAAGAAAUGGGAUAAUAUAUAGUCGUCCCUUAAGAGUCCUUUUAAGAGACGACUAAGUAGCAGUUAUUAAGUAGAUUACAAAGAAAAUCUCUAAUGACUGCCAUUAGAAAAGUAAGGCCUAACGACAAAUCCGGGUUAAAAAUAUUCGGGAGUGUUCGAAAACCGAUAGAAUGCCCCUCCAUCGCUUCGAAGUACAGAGAGAGGGGUAUCGGGAGGA .(((((.(((((..(..((((((..((((((((((((.....((((..(((.....((((....)))))))..))))....)))))))..))))).))))))..).......((((((((.(((((((....))))))).))))))))....((((((((((.(.(((((........))))))))))))))))..)))))...))))).(((..(((((..(((((((.......)))))))..)).)))....(((((.....(((((((..(((((....)))...))..)))))))))))).))). (-95.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCCUCCCGAUACCCCUCUCUCUGUACUUCGAAGCGAUGGAGGGGCAUUCUAUCGGUUUUCGAACACUCCCGAAUAUUUUUAACCCGGAUUUGUCGUUAGGCCUUACUUUUCUAAUGGCAGUCAUUAGAGAUUUUCUUUGUAAUCUACUUAAUAACUGCUACUUAGUCGUCUCUUAAAAGGACUCUUAAGGGACGACUAUAUAUUAUCCCAUUUCUUAUCUUCGUGCUAUCAAACUUUCUCACAUCUUGUUAGAUAUUUAGUGGUAAAGAAGAUACAGCACAGAUAGCAAAAUGAAAAUUUAAACGUAAAA (((..(((((((((((((.((.((........)))).))))))).....))))))..((((........))))............))).(((((((((((.........))))))))))).......(((((((((((((.((((..........((((...((((((((((((((........)))))))))))))).................(((((((.((((((.(((...(((.((.....)).)))..))).))))))..))))))).)))).)))).)))))..)))))))).......... (-79.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 842 130 81 221 172 NC_002950:PG1358|5end_acetyltransferase,_GNAT_family_1437333..1437563_NEGATIVE 433 310 265 198 157 NC_002950:PG0139|5end_membrane-bound_lytic_murein_transglycosylase_D,_putative_163141..163371_NEGATIVE 367 309 265 55 11 NC_002950:PG2134|5end_lipoprotein,_putative_2239927..2240157_POSITIVE 362 307 262 65 14 NC_002950:PG0324|5end_histidine_ammonia-lyase_359082..359312_NEGATIVE 361 309 261 56 3 NC_002950:PG1576|5end_L-aspartate_oxidase_1653016..1653246_POSITIVE 350 309 261 164 126 NC_002950:PG0166|5end_peptidyl-tRNA_hydrolase_188370..188600_NEGATIVE 343 309 269 228 184 NC_002950:PG0419|5end_hypothetical_protein_460607..460837_NEGATIVE 333 309 262 51 2 NC_002950:PG1006|5end_hypothetical_protein_1066478..1066708_NEGATIVE 329 309 266 126 69 NC_002950:PG0606|5end_hypothetical_protein_662558..662788_NEGATIVE 328 310 265 64 23 NC_002950:PG1859|5end_glycerate_kinase_family_protein_1958334..1958564_NEGATIVE 328 300 256 68 19 NC_002950:PG1249|5end_1-acyl-sn-glycerol-3-phosphate_acetyltransferase,_putative_1327161..1327391_NEGATIVE 328 309 265 220 152 NC_002950:PG0199|5end_TatD_family_protein_238137..238367_NEGATIVE 325 310 274 160 109 NC_002950:PG1636|5end_FtsK/SpoIIIE_family_protein_1718460..1718690_NEGATIVE 324 310 269 48 4 NC_002950:PG1225|5end_ABC_transporter,_ATP-binding_protein_1301385..1301615_POSITIVE 323 309 266 41 4 NC_002950:PG2109|5end_thiamine-phosphate_pyrophosphorylase_2219452..2219682_NEGATIVE 322 310 265 104 58 NC_002950:PG0145|5end_hypothetical_protein_167831..168061_POSITIVE 319 305 262 184 136 NC_002950:PG1837|5end_hemagglutinin_protein_HagA_1930337..1930567_POSITIVE 318 292 256 64 17 NC_002950:PG1678|5end_hypothetical_protein_1763862..1764092_NEGATIVE 317 310 265 81 34 NC_002950:PG1042|5end_glycogen_synthase,_putative_1110638..1110868_NEGATIVE 317 310 267 63 1 NC_002950:PG0985|5end_RNA_polymerase_sigma-70_factor,_ECF_subfamily_1046930..1047160_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 383 304 266 86 45 NC_002950:PG0605|3end_hypothetical_protein_661165..661315_NEGATIVE 381 298 253 77 27 NC_002950:PG1723|3end_ribosomal_protein_S20_1813403..1813553_POSITIVE 362 307 262 62 11 NC_002950:PG0325|3end_hypothetical_protein_359085..359235_NEGATIVE 357 310 269 55 7 NC_002950:PG0097|3end_hypothetical_protein_115056..115206_NEGATIVE 349 142 109 113 77 NC_002950:PG1549|3end_hypothetical_protein_1627807..1627957_NEGATIVE 348 310 262 85 30 NC_002950:PG1511|3end_hypothetical_protein_1587850..1588000_POSITIVE 344 145 109 111 77 NC_002950:PG0461|3end_ISPg7,_transposase_503439..503589_NEGATIVE 337 309 266 41 1 NC_002950:PG2133|3end_lipoprotein,_putative_2239993..2240143_POSITIVE 335 309 264 44 2 NC_002950:PG2110|3end_thiamine_biosynthesis_protein_ThiC_2219449..2219599_NEGATIVE 335 307 266 68 25 NC_002950:PG1977|3end_hypothetical_protein_2064687..2064837_NEGATIVE 333 310 265 84 45 NC_002950:PG0332|3end_transcription_termination_factor_Rho_367675..367825_POSITIVE 330 299 256 84 36 NC_002950:PG1722|3end_hypothetical_protein_1812633..1812783_NEGATIVE 329 307 261 63 27 NC_002950:PG0387|3end_elongation_factor_Tu_421910..422060_POSITIVE 328 310 263 100 49 NC_002950:PG0896|3end_beta-galactosidase_960382..960532_POSITIVE 327 309 261 148 110 NC_002950:PG2009|3end_DNA_repair_protein_RecO,_putative_2099131..2099281_POSITIVE 326 304 264 49 3 NC_002950:PG1250|3end_hypothetical_protein_1327184..1327334_NEGATIVE 324 309 262 84 34 NC_002950:PG2036|3end_ion_transporter_2137552..2137702_POSITIVE 323 300 263 44 1 NC_002950:PG2136|3end_hypothetical_protein_2245104..2245254_POSITIVE 315 307 261 64 23 NC_002950:PG1352|3end_hypothetical_protein_1432737..1432887_NEGATIVE 311 310 261 114 60 NC_002950:PG1641|3end_phosphotyrosine_protein_phosphatase_1721260..1721410_NEGATIVE