Origin IGS: gatgtcgtttgtttttcggttacaaagttaaaaaaccatgtgattggctcggcctacgaccaactgcttctctgaacgttgagcagagaagtatcctccgcacattgttattgtatgcaagaggtcagaaaatgagcagttcaaaccttgggacaagctctctcc .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ggagagagcttgtcccaaggtttgaactgctcattttctgacctcttgcatacaataacaatgtgcggaggatacttctctgctcaacgttcagagaagcagttggtcgtaggccgagccaatcacatggttttttaactttgtaaccgaaaaacaaacgacatc Mask Tandem Repeat Region ================================================ gatgtcgtttgtttttcggttacaaagttaaaaaaccatgtgattggctcggcctacgaccaactgcttctctgaacgttgagcagagaagtatcctccgcacattgttattgtatgcaagaggtcagaaaatgagcagttcaaaccttgggacaagctctctcc Find is-nt database================================================ Query_seq: PG2022:PG2023|PG2022:PG2023:hypothetical protein:methionyl-tRNA formyltransferase:<-<-:2117490..2117654 165 gatgtcgtttgtttttcggttacaaagttaaaaaaccatgtgattggctcggcctacgaccaactgcttctctgaacgttgagcagagaagtatcctccgcacattgttattgtatgcaagaggtcagaaaatgagcagttcaaaccttgggacaagctctctcc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG2022:PG2023|PG2022:PG2023:hypothetical protein:methionyl-tRNA formyltransferase:<-<-:2117490..2117654 165 gatgtcgtttgtttttcggttacaaagttaaaaaaccatgtgattggctcggcctacgaccaactgcttctctgaacgttgagcagagaagtatcctccgcacattgttattgtatgcaagaggtcagaaaatgagcagttcaaaccttgggacaagctctctcc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG2022:PG2023|PG2022:PG2023:hypothetical protein:methionyl-tRNA formyltransferase:<-<-:2117490..2117654 165 gatgtcgtttgtttttcggttacaaagttaaaaaaccatgtgattggctcggcctacgaccaactgcttctctgaacgttgagcagagaagtatcctccgcacattgttattgtatgcaagaggtcagaaaatgagcagttcaaaccttgggacaagctctctcc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gatgtcgtttgtttttcggttacaaagttaaaaaaccatgtgattggctcggcctacgaccaactgcttctctgaacgttgagcagagaagtatcctccgcacattgttattgtatgcaagaggtcagaaaatgagcagttcaaaccttgggacaagctctctcc Predict ORF larger than 30AA ================================================ Protein_Len: 52 Strand: + Start: 9 End: 164 ........ M F F G Y K V K K P C D W L G L R P T A S L N V E Q R S I L R T L L L Y A R G Q K M S S S N L G T S S L . Protein_Len: 42 Strand: - Start: 31 End: 156 .............................. F V M H N A R G V V L Q K E S R Q A S F Y G G C M T I T H L L D S F S C N L G Q S M ......... gatgtcgtttgtttttcggttacaaagttaaaaaaccatgtgattggctcggcctacgaccaactgcttctctgaacgttgagcagagaagtatcctccgcacattgttattgtatgcaagaggtcagaaaatgagcagttcaaaccttgggacaagctctctcc 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================================================ gatgtcgtttgtttttcggttacaaagttaaaaaaccatgtgattggctcggcctacgaccaactgcttctctgaacgttgagcagagaagtatcctccgcacattgttattgtatgcaagaggtcagaaaatgagcagttcaaaccttgggacaagctctctcc Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PG2022:PG2023|PG2022:PG2023:hypothetical protein:methionyl-tRNA formyltransferase:<-<-:2117490..2117654 165 gatgtcgtttgtttttcggttacaaagttaaaaaaccatgtgattggctcggcctacgaccaactgcttctctgaacgttgagcagagaagtatcctccgcacattgttattgtatgcaagaggtcagaaaatgagcagttcaaaccttgggacaagctctctcc Intra-Species Hit: Count: 1 Min: 1 Max: 165 Len: 165 Subject: NC_002950_PG2022_PG2023|hypothetical protein:methionyl-tRNA formyltransferase|NEGATIVE:NEGATIVE|[2117490, 2117654]|165 HSP 1 e-value: 7.0E-89 bit: 327.0 Len: 165 Query Start:1 Query End:165 Subject Strand: POSITIVE Subject Start: 1 Subject End: 165 gatgtcgtttgtttttcggttacaaagttaaaaaaccatgtgattggctcggcctacgaccaactgcttctctgaacgttgagcagagaagtatcctccgcacattgttattgtatgcaagaggtcagaaaatgagcagttcaaaccttgggacaagctctctcc gatgtcgtttgtttttcggttacaaagttaaaaaaccatgtgattggctcggcctacgaccaactgcttctctgaacgttgagcagagaagtatcctccgcacattgttattgtatgcaagaggtcagaaaatgagcagttcaaaccttgggacaagctctctcc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAUGUCGUUUGUUUUUCGGUUACAAAGUUAAAAAACCAUGUGAUUGGCUCGGCCUACGACCAACUGCUUCUCUGAACGUUGAGCAGAGAAGUAUCCUCCGCACAUUGUUAUUGUAUGCAAGAGGUCAGAAAAUGAGCAGUUCAAACCUUGGGACAAGCUCUCUCC ......(((((((((..(((((((..(((....)))..)))((...(((((......((((...((((((((((.........))))))))))......(((.((.......)).)))....))))......)))))...)).))))..)))))))))....... (-42.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GGAGAGAGCUUGUCCCAAGGUUUGAACUGCUCAUUUUCUGACCUCUUGCAUACAAUAACAAUGUGCGGAGGAUACUUCUCUGCUCAACGUUCAGAGAAGCAGUUGGUCGUAGGCCGAGCCAAUCACAUGGUUUUUUAACUUUGUAACCGAAAAACAAACGACAUC ..........((((....((((((..((((..(((..(((.(((((.(((((.........))))))))))...((((((((.........)))))))))))..))).))))..))))))....(((.((((....)))).)))...............)))).. (-42.90) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 1032 100 51 191 142 NC_002950:PG2022|5end_hypothetical_protein_2117399..2117629_NEGATIVE 394 90 41 225 172 NC_002950:PG1588|5end_hypothetical_protein_1666532..1666762_NEGATIVE 367 85 41 90 43 NC_002950:PG1963|5end_Sua5/YciO/YrdC/YwlC_family_protein_2052338..2052568_POSITIVE 362 99 52 229 184 NC_002950:PG0960|5end_tRNA_(guanine-N(7)-)-methyltransferase_1021895..1022125_NEGATIVE 345 86 41 198 160 NC_002950:PG2100|5end_immunoreactive_63_kDa_antigen_PG102_2210191..2210421_NEGATIVE 336 88 41 185 125 NC_002950:PG0141|5end_spoOJ_protein_164747..164977_NEGATIVE 332 86 47 100 58 NC_002950:PG1213|5end_ribonuclease_H_1292433..1292663_POSITIVE 328 99 51 66 23 NC_002950:PG0091|5end_transporter,_putative_107400..107630_NEGATIVE 324 88 50 44 2 NC_002950:PG1861|5end_hypothetical_protein_1960057..1960287_NEGATIVE 322 100 51 176 129 NC_002950:PG0978|5end_shikimate_5-dehydrogenase_1040033..1040263_POSITIVE 320 87 41 51 4 NC_002950:PG1480|5end_conjugative_transposon_protein_TraI_1555895..1556125_NEGATIVE 316 86 43 151 113 NC_002950:PG1966|5end_hypothetical_protein_2056924..2057154_NEGATIVE 304 97 51 71 17 NC_002950:PG2034|5end_oxidoreductase,_FAD-binding,_putative_2135701..2135931_NEGATIVE 303 96 51 225 179 NC_002950:PG2036|5end_ion_transporter_2136561..2136791_POSITIVE 302 155 112 76 30 NC_002950:PG1904|5end_hypothetical_protein_2004761..2004991_NEGATIVE 302 78 36 176 138 NC_002950:PG0684|5end_ABC_transporter,_permease_protein,_putative_737648..737878_POSITIVE 301 86 45 87 32 NC_002950:PG0665|5end_beta-galactosidase_711827..712057_POSITIVE 300 87 41 217 167 NC_002950:PG1726|5end_PDZ_domain_protein_1815281..1815511_POSITIVE 299 87 42 51 5 NC_002950:PG0143|5end_hydrolase,_carbon-nitrogen_family_166625..166855_NEGATIVE 298 100 51 184 135 NC_002950:PG1007|5end_transcriptional_regulator,_GntR_family_1066889..1067119_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 414 88 44 82 26 NC_002950:PG1133|3end_hypothetical_protein_1214103..1214253_POSITIVE 354 81 41 151 111 NC_002950:PG1589|3end_dihydropteroate_synthase_1666593..1666743_NEGATIVE 345 86 41 111 73 NC_002950:PG2101|3end_hypothetical_protein_2210278..2210428_NEGATIVE 332 86 47 72 30 NC_002950:PG1212|3end_TPR_domain_protein_1292485..1292635_POSITIVE 324 90 41 145 92 NC_002950:PG1625|3end_hypothetical_protein_1708718..1708868_POSITIVE 308 89 46 149 106 NC_002950:PG0800|3end_hypothetical_protein_854719..854869_NEGATIVE 302 78 36 149 111 NC_002950:PG0683|3end_ABC_transporter,_permease_protein,_putative_737701..737851_POSITIVE 300 78 36 61 2 NC_002950:PG0020|3end_transcriptional_regulator,_MarR_family_24166..24316_POSITIVE 299 78 37 106 51 NC_002950:PG2094|3end_hypothetical_protein_2193321..2193471_NEGATIVE 297 109 66 78 33 NC_002950:PG1739|3end_hypothetical_protein_1825128..1825278_NEGATIVE 296 88 44 127 78 NC_002950:PG1169|3end_hypothetical_protein_1249083..1249233_NEGATIVE 293 78 36 115 63 NC_002950:PG0443|3end_hemagglutinin-related_protein_483147..483297_POSITIVE 291 87 46 124 72 NC_002950:PG2142|3end_GTP-binding_protein_Era_2248564..2248714_POSITIVE 290 74 34 72 27 NC_002950:PG0523|3end_inositol-5-monophosphate_dehydrogenase_566898..567048_NEGATIVE 288 130 82 149 93 NC_002950:PG0383|3end_membrane-associated_zinc_metalloprotease,_putative_416165..416315_POSITIVE 286 100 53 85 39 NC_002950:PG1537|3end_hypothetical_protein_1617603..1617753_POSITIVE 285 124 83 59 17 NC_002950:PG0371|3end_hypothetical_protein_404224..404374_POSITIVE 283 81 41 121 78 NC_002950:PG0330|3end_DNA-binding_protein,_histone-like_family_364478..364628_NEGATIVE 282 100 51 72 14 NC_002950:PG1709|3end_ISPg5,_transposase_Orf1_1795383..1795533_POSITIVE 282 100 51 72 14 NC_002950:PG1645|3end_ISPg5,_transposase_Orf1_1725673..1725823_NEGATIVE