Origin IGS: agtactgtaactatagtaggttgattatgacggaactaaaataaaaaagactacctgtcctaatagcaaggacagggagccttttgtattctctaagaaatgatttggctacaaggatgaaagcccactttacgtcttcttcgcttgagcacagaaagatcggagcgtgc .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 gcacgctccgatctttctgtgctcaagcgaagaagacgtaaagtgggctttcatccttgtagccaaatcatttcttagagaatacaaaaggctccctgtccttgctattaggacaggtagtcttttttattttagttccgtcataatcaacctactatagttacagtact Mask Tandem Repeat Region ================================================ agtactgtaactatagtaggttgattatgacggaactaaaataaaaaagactacctgtcctaatagcaaggacagggagccttttgtattctctaagaaatgatttggctacaaggatgaaagcccactttacgtcttcttcgcttgagcacagaaagatcggagcgtgc Find is-nt database================================================ Query_seq: PG0784:PG0785|PG0784:PG0785:polyprenyl synthetase:tonB protein, putative:<-<-:836820..836989 170 agtactgtaactatagtaggttgattatgacggaactaaaataaaaaagactacctgtcctaatagcaaggacagggagccttttgtattctctaagaaatgatttggctacaaggatgaaagcccactttacgtcttcttcgcttgagcacagaaagatcggagcgtgc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG0784:PG0785|PG0784:PG0785:polyprenyl synthetase:tonB protein, putative:<-<-:836820..836989 170 agtactgtaactatagtaggttgattatgacggaactaaaataaaaaagactacctgtcctaatagcaaggacagggagccttttgtattctctaagaaatgatttggctacaaggatgaaagcccactttacgtcttcttcgcttgagcacagaaagatcggagcgtgc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG0784:PG0785|PG0784:PG0785:polyprenyl synthetase:tonB protein, putative:<-<-:836820..836989 170 agtactgtaactatagtaggttgattatgacggaactaaaataaaaaagactacctgtcctaatagcaaggacagggagccttttgtattctctaagaaatgatttggctacaaggatgaaagcccactttacgtcttcttcgcttgagcacagaaagatcggagcgtgc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 agtactgtaactatagtaggttgattatgacggaactaaaataaaaaagactacctgtcctaatagcaaggacagggagccttttgtattctctaagaaatgatttggctacaaggatgaaagcccactttacgtcttcttcgcttgagcacagaaagatcggagcgtgc Predict ORF larger than 30AA ================================================ Protein_Len: 36 Strand: + Start: 63 End: 170 .............................................................. M A R T G S L L Y S L R N D L A T R M K A H F T S S S L E H R K I G A C Protein_Len: 49 Strand: - Start: 14 End: 160 ............. L L N I I V S S F Y F L S G T R I A L V P L R K Y E R L F S K A V L I F A W K V D E E S S C L F M .......... agtactgtaactatagtaggttgattatgacggaactaaaataaaaaagactacctgtcctaatagcaaggacagggagccttttgtattctctaagaaatgatttggctacaaggatgaaagcccactttacgtcttcttcgcttgagcacagaaagatcggagcgtgc 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================================================ agtactgtaactatagtaggttgattatgacggaactaaaataaaaaagactacctgtcctaatagcaaggacagggagccttttgtattctctaagaaatgatttggctacaaggatgaaagcccactttacgtcttcttcgcttgagcacagaaagatcggagcgtgc Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 100 HP_score: -11.8 Tail_Score: -4.43879 Start: 42 End: 88 Full_Region: tcatttcttagagaa tacaaaaggctccctgtcct tgctatt aggacaggtagtctttttta ttttagttccgtcat .........................................tacaaaaggctccctgtccttgctattaggacaggtagtctttttta.................................................................................. TransTerm Strand: - Conf: 100 HP_score: -9.9 Tail_Score: -5.85244 Start: 49 End: 81 Full_Region: ttagagaatacaaaa ggctccctgtcct tgctatt aggacaggtagtc ttttttattttagtt ................................................ggctccctgtccttgctattaggacaggtagtc......................................................................................... Find igs database================================================ Query_seq: PG0784:PG0785|PG0784:PG0785:polyprenyl synthetase:tonB protein, putative:<-<-:836820..836989 170 agtactgtaactatagtaggttgattatgacggaactaaaataaaaaagactacctgtcctaatagcaaggacagggagccttttgtattctctaagaaatgatttggctacaaggatgaaagcccactttacgtcttcttcgcttgagcacagaaagatcggagcgtgc Intra-Species Hit: Count: 1 Min: 1 Max: 170 Len: 170 Subject: NC_002950_PG0784_PG0785|polyprenyl synthetase:tonB protein, putative|NEGATIVE:NEGATIVE|[836820,836989]|170 HSP 1 e-value: 7.0E-92 bit: 337.0 Len: 170 Query Start:1 Query End:170 Subject Strand: POSITIVE Subject Start: 1 Subject End: 170 agtactgtaactatagtaggttgattatgacggaactaaaataaaaaagactacctgtcctaatagcaaggacagggagccttttgtattctctaagaaatgatttggctacaaggatgaaagcccactttacgtcttcttcgcttgagcacagaaagatcggagcgtgc agtactgtaactatagtaggttgattatgacggaactaaaataaaaaagactacctgtcctaatagcaaggacagggagccttttgtattctctaagaaatgatttggctacaaggatgaaagcccactttacgtcttcttcgcttgagcacagaaagatcggagcgtgc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGUACUGUAACUAUAGUAGGUUGAUUAUGACGGAACUAAAAUAAAAAAGACUACCUGUCCUAAUAGCAAGGACAGGGAGCCUUUUGUAUUCUCUAAGAAAUGAUUUGGCUACAAGGAUGAAAGCCCACUUUACGUCUUCUUCGCUUGAGCACAGAAAGAUCGGAGCGUGC (((.((((...((((((......)))))))))).))).......(((((.((.((((((((.......)))))))).)).)))))((((.((((..((..(..(((((((.((((((.(((..(.........)..))).)).))))))).)))).)..)))))).)))) (-40.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GCACGCUCCGAUCUUUCUGUGCUCAAGCGAAGAAGACGUAAAGUGGGCUUUCAUCCUUGUAGCCAAAUCAUUUCUUAGAGAAUACAAAAGGCUCCCUGUCCUUGCUAUUAGGACAGGUAGUCUUUUUUAUUUUAGUUCCGUCAUAAUCAACCUACUAUAGUUACAGUACU ((.((((.((.((((.((.(((....))).))))))))...)))).))........(((((((................(((((.((((((((.((((((((.......)))))))).)))))))).)))))((((...((........))..))))..))))))).... (-43.90) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 903 100 51 191 142 NC_002950:PG0784|5end_polyprenyl_synthetase_836729..836959_NEGATIVE 379 170 128 75 29 NC_002950:PG1249|5end_1-acyl-sn-glycerol-3-phosphate_acetyltransferase,_putative_1327161..1327391_NEGATIVE 346 170 123 89 34 NC_002950:PG1593|5end_shikimate_kinase_1671503..1671733_POSITIVE 340 138 101 75 37 NC_002950:PG1745|5end_phosphoribulokinase_family_protein_1831024..1831254_NEGATIVE 335 168 124 54 15 NC_002950:PG2091|5end_dihydroneopterin_aldolase_2191177..2191407_POSITIVE 331 169 122 210 159 NC_002950:PG0083|5end_hypothetical_protein_96952..97182_POSITIVE 330 170 125 47 1 NC_002950:PG1305|5end_glycine_dehydrogenase_1386538..1386768_NEGATIVE 324 170 126 230 174 NC_002950:PG2095|5end_lipoprotein,_putative_2200617..2200847_NEGATIVE 322 161 126 224 185 NC_002950:PG0268|5end_tRNA_(5-methylaminomethyl-2-thiouridylate)-methyltransferase_300898..301128_POSITIVE 312 150 102 173 125 NC_002950:PG1565|5end_3-deoxy-D-manno-octulosonic-acid_transferase,_putative_1645859..1646089_NEGATIVE 311 94 51 213 162 NC_002950:PG0607|5end_hypothetical_protein_662552..662782_POSITIVE 307 166 134 70 33 NC_002950:PG1875|5end_hemolysin_1970621..1970851_NEGATIVE 303 169 123 162 130 NC_002950:PG0339|5end_hypothetical_protein_375062..375292_POSITIVE 302 169 123 123 76 NC_002950:PG1636|5end_FtsK/SpoIIIE_family_protein_1718460..1718690_NEGATIVE 302 170 124 125 87 NC_002950:PG0431|5end_hypothetical_protein_468978..469208_POSITIVE 300 154 112 58 13 NC_002950:PG0882|5end_hypothetical_protein_944195..944425_POSITIVE 291 150 107 52 1 NC_002950:PG0223|5end_exonuclease_257610..257840_NEGATIVE 288 165 122 47 3 NC_002950:PG1861|5end_hypothetical_protein_1960057..1960287_NEGATIVE 286 169 133 153 109 NC_002950:PG0979|5end_hypothetical_protein_1040752..1040982_POSITIVE 286 170 126 220 166 NC_002950:PG0256|5end_CvpA_family_protein_289509..289739_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 379 170 128 52 6 NC_002950:PG1250|3end_hypothetical_protein_1327184..1327334_NEGATIVE 327 170 127 42 2 NC_002950:PG1306|3end_metallo-beta-lactamase_family_protein_1386543..1386693_NEGATIVE 313 168 134 89 55 NC_002950:PG0678|3end_pyrazinamidase/nicotinamidase,_putative_729471..729621_POSITIVE 312 150 102 148 100 NC_002950:PG1566|3end_glutamyl-tRNA_synthetase_1645884..1646034_NEGATIVE 309 167 122 139 79 NC_002950:PG0333|3end_hypothetical_protein_368811..368961_POSITIVE 307 166 134 58 21 NC_002950:PG1876|3end_hypothetical_protein_1970633..1970783_NEGATIVE 302 170 124 140 102 NC_002950:PG0430|3end_ferrodoxin_oxidoreductase_beta_subunit_469073..469223_POSITIVE 295 170 122 84 17 NC_002950:PG0334|3end_glycosyl_transferase,_group_2_family_protein_368792..368942_NEGATIVE 290 99 55 66 19 NC_002950:PG1874|3end_hypothetical_protein_1969253..1969403_NEGATIVE 289 93 53 52 14 NC_002950:PG0443|3end_hemagglutinin-related_protein_483147..483297_POSITIVE 285 170 123 125 71 NC_002950:PG1174|3end_thioesterase_family_protein_1253210..1253360_NEGATIVE 283 151 111 49 8 NC_002950:PG0224|3end_hypothetical_protein_257614..257764_NEGATIVE 283 97 51 98 41 NC_002950:PG0042|3end_serine_hydroxymethyltransferase_50989..51139_POSITIVE 282 80 31 63 8 NC_002950:PG1285|3end_glucosamine-6-phosphate_deaminase_1364941..1365091_POSITIVE 279 107 66 83 36 NC_002950:PG1798|3end_immunoreactive_46_kDa_antigen_PG99_1893028..1893178_NEGATIVE 277 167 125 150 107 NC_002950:PG1625|3end_hypothetical_protein_1708718..1708868_POSITIVE 276 105 69 87 45 NC_002950:PG1508|3end_hypothetical_protein_1586688..1586838_POSITIVE 276 85 45 63 25 NC_002950:PG0775|3end_acyl-CoA_dehydrogenase_family_protein_827432..827582_NEGATIVE 276 169 121 111 66 NC_002950:PG0758|3end_peptidyl-dipeptidase_Dcp_806467..806617_NEGATIVE 275 165 122 75 33 NC_002950:PG1723|3end_ribosomal_protein_S20_1813403..1813553_POSITIVE