Origin IGS: ccactccgattgggaatcgagtgcatgctcaaacgaatgatgaaaatctttgacgaatccgtttatcggtgcctgtatggcttcgagagttgtcataatcagatactattatcaattcgaacaaagatagagatttttctcacctattttttg .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 caaaaaataggtgagaaaaatctctatctttgttcgaattgataatagtatctgattatgacaactctcgaagccatacaggcaccgataaacggattcgtcaaagattttcatcattcgtttgagcatgcactcgattcccaatcggagtgg Mask Tandem Repeat Region ================================================ ccactccgattgggaatcgagtgcatgctcaaacgaatgatgaaaatctttgacgaatccgtttatcggtgcctgtatggcttcgagagttgtcataatcagatactattatcaattcgaacaaagatagagatttttctcacctattttttg Find is-nt database================================================ Query_seq: PG1998:PG1999|PG1998:PG1999:polyprenyl synthetase:hypothetical protein:<-<-:2088120..2088272 153 ccactccgattgggaatcgagtgcatgctcaaacgaatgatgaaaatctttgacgaatccgtttatcggtgcctgtatggcttcgagagttgtcataatcagatactattatcaattcgaacaaagatagagatttttctcacctattttttg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG1998:PG1999|PG1998:PG1999:polyprenyl synthetase:hypothetical protein:<-<-:2088120..2088272 153 ccactccgattgggaatcgagtgcatgctcaaacgaatgatgaaaatctttgacgaatccgtttatcggtgcctgtatggcttcgagagttgtcataatcagatactattatcaattcgaacaaagatagagatttttctcacctattttttg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG1998:PG1999|PG1998:PG1999:polyprenyl synthetase:hypothetical protein:<-<-:2088120..2088272 153 ccactccgattgggaatcgagtgcatgctcaaacgaatgatgaaaatctttgacgaatccgtttatcggtgcctgtatggcttcgagagttgtcataatcagatactattatcaattcgaacaaagatagagatttttctcacctattttttg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ccactccgattgggaatcgagtgcatgctcaaacgaatgatgaaaatctttgacgaatccgtttatcggtgcctgtatggcttcgagagttgtcataatcagatactattatcaattcgaacaaagatagagatttttctcacctattttttg Predict ORF larger than 30AA ================================================ Protein_Len: 48 Strand: + Start: 10 End: 153 ......... M G I E C M L K R M M K I F D E S V Y R C L Y G F E S C H N Q I L L S I R T K I E I F L T Y F L Protein_Len: 31 Strand: - Start: 32 End: 124 ............................... V F S S F R Q R I R K D T G T H S R S N D Y D S V I I L E F M ............................. Protein_Len: 34 Strand: - Start: 1 End: 102 W E S Q S D L A H E F S H H F D K V F G N I P A Q I A E L T T M I M ................................................... ccactccgattgggaatcgagtgcatgctcaaacgaatgatgaaaatctttgacgaatccgtttatcggtgcctgtatggcttcgagagttgtcataatcagatactattatcaattcgaacaaagatagagatttttctcacctattttttg 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================================================ ccactccgattgggaatcgagtgcatgctcaaacgaatgatgaaaatctttgacgaatccgtttatcggtgcctgtatggcttcgagagttgtcataatcagatactattatcaattcgaacaaagatagagatttttctcacctattttttg Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PG1998:PG1999|PG1998:PG1999:polyprenyl synthetase:hypothetical protein:<-<-:2088120..2088272 153 ccactccgattgggaatcgagtgcatgctcaaacgaatgatgaaaatctttgacgaatccgtttatcggtgcctgtatggcttcgagagttgtcataatcagatactattatcaattcgaacaaagatagagatttttctcacctattttttg Intra-Species Hit: Count: 1 Min: 1 Max: 153 Len: 153 Subject: NC_002950_PG1998_PG1999|polyprenyl synthetase:hypothetical protein|NEGATIVE:NEGATIVE|[2088120,2088272]|153 HSP 1 e-value: 9.0E-82 bit: 303.0 Len: 153 Query Start:1 Query End:153 Subject Strand: POSITIVE Subject Start: 1 Subject End: 153 ccactccgattgggaatcgagtgcatgctcaaacgaatgatgaaaatctttgacgaatccgtttatcggtgcctgtatggcttcgagagttgtcataatcagatactattatcaattcgaacaaagatagagatttttctcacctattttttg ccactccgattgggaatcgagtgcatgctcaaacgaatgatgaaaatctttgacgaatccgtttatcggtgcctgtatggcttcgagagttgtcataatcagatactattatcaattcgaacaaagatagagatttttctcacctattttttg Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CCACUCCGAUUGGGAAUCGAGUGCAUGCUCAAACGAAUGAUGAAAAUCUUUGACGAAUCCGUUUAUCGGUGCCUGUAUGGCUUCGAGAGUUGUCAUAAUCAGAUACUAUUAUCAAUUCGAACAAAGAUAGAGAUUUUUCUCACCUAUUUUUUG ..........((((....((((....))))...((((((((((..((((.((((((.((......((((.(((.....))).)))))).)))))).....))))....))))).)))))..........((((....)))).))))....... (-33.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CAAAAAAUAGGUGAGAAAAAUCUCUAUCUUUGUUCGAAUUGAUAAUAGUAUCUGAUUAUGACAACUCUCGAAGCCAUACAGGCACCGAUAAACGGAUUCGUCAAAGAUUUUCAUCAUUCGUUUGAGCAUGCACUCGAUUCCCAAUCGGAGUGG ........((((((((....)))).)))).(((((((((((((......((((.....((((..........(((.....))).(((.....)))....)))).))))....))))...)))))))))..((((((((.....))).))))). (-34.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 944 100 51 191 142 NC_002950:PG1998|5end_polyprenyl_synthetase_2088029..2088259_NEGATIVE 382 90 48 178 128 NC_002950:PG1570|5end_rhodanese-like_domain_protein_1648965..1649195_NEGATIVE 379 85 47 44 8 NC_002950:PG0634|5end_ThiJ/PfpI_family_protein_686143..686373_POSITIVE 377 42 7 158 128 NC_002950:PG1136|5end_hypothetical_protein_1218327..1218557_NEGATIVE 369 97 54 124 71 NC_002950:PG2010|5end_phosphomannomutase,_putative_2099220..2099450_POSITIVE 358 69 22 55 5 NC_002950:PG1966|5end_hypothetical_protein_2056924..2057154_NEGATIVE 354 88 50 72 27 NC_002950:PG0271|5end_single-stranded_binding_protein_303842..304072_POSITIVE 343 94 60 184 140 NC_002950:PG1995|5end_hypothetical_protein_2085584..2085814_POSITIVE 342 89 46 211 158 NC_002950:PG1536|5end_cell_division_protein_FtsX,_putative_1616362..1616592_POSITIVE 339 94 57 224 184 NC_002950:PG1392|5end_rod_shape-determining_protein_RodA,_putative_1474416..1474646_NEGATIVE 336 96 52 91 49 NC_002950:PG0522|5end_tRNA_delta(2)-isopentenylpyrophosphate_transferase_566901..567131_NEGATIVE 331 89 44 186 128 NC_002950:PG1561|5end_dTDP-4-dehydrorhamnose_reductase_1640995..1641225_NEGATIVE 325 91 54 195 153 NC_002950:PG2125|5end_transcriptional_regulator,_AraC_family_2232254..2232484_NEGATIVE 322 94 51 56 3 NC_002950:PG0446|5end_thiF_protein_486599..486829_POSITIVE 318 95 51 155 111 NC_002950:PG0582|5end_cell_division_protein_FtsQ,_putative_639600..639830_POSITIVE 317 45 3 108 62 NC_002950:PG2090|5end_cation_efflux_family_protein_2190230..2190460_POSITIVE 317 97 58 222 191 NC_002950:PG1657|5end_methylmalonyl-CoA_mutase_1739344..1739574_POSITIVE 314 100 51 50 2 NC_002950:PG0910|5end_FHA_domain_protein_973666..973896_NEGATIVE 313 106 66 209 168 NC_002950:PG0963|5end_hypothetical_protein_1024332..1024562_NEGATIVE 304 92 54 193 164 NC_002950:PG1743|5end_2-dehydro-3-deoxyphosphooctonate_aldolase_1828348..1828578_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 336 96 52 94 52 NC_002950:PG0523|3end_inositol-5-monophosphate_dehydrogenase_566898..567048_NEGATIVE 331 92 52 54 5 NC_002950:PG0425|3end_esterase,_putative_463219..463369_NEGATIVE 323 89 42 147 102 NC_002950:PG0124|3end_hypothetical_protein_145614..145764_NEGATIVE 317 100 51 68 6 NC_002950:PG0165|3end_heat_shock_protein_15_187370..187520_NEGATIVE 296 94 54 55 19 NC_002950:PG1495|3end_DNA_topoisomerase_III_1573416..1573566_POSITIVE 296 92 63 34 1 NC_002950:PG0661|3end_hypothetical_protein_709692..709842_NEGATIVE 296 94 54 124 84 NC_002950:PG0344|3end_purple_acid_phosphatase_378543..378693_NEGATIVE 292 35 2 49 3 NC_002950:PG1110|3end_hypothetical_protein_1183237..1183387_POSITIVE 292 95 54 93 45 NC_002950:PG0488|3end_Holliday_junction_DNA_helicase_RuvB_529280..529430_POSITIVE 284 94 51 137 80 NC_002950:PG2070|3end_hypothetical_protein_2166547..2166697_POSITIVE 284 95 54 142 95 NC_002950:PG1218|3end_hypothetical_protein_1296475..1296625_POSITIVE 282 79 37 148 98 NC_002950:PG2102|3end_immunoreactive_61_kDa_antigen_PG91_2211424..2211574_NEGATIVE 282 92 58 57 15 NC_002950:PG0659|3end_hypothetical_protein_708336..708486_NEGATIVE 281 94 56 137 93 NC_002950:PG1743|3end_2-dehydro-3-deoxyphosphooctonate_aldolase_1827530..1827680_NEGATIVE 277 89 48 46 1 NC_002950:PG1966|3end_hypothetical_protein_2056118..2056268_NEGATIVE 277 97 53 142 83 NC_002950:PG1863|3end_hypothetical_protein_1960364..1960514_NEGATIVE 277 96 70 117 92 NC_002950:PG0522|3end_tRNA_delta(2)-isopentenylpyrophosphate_transferase_565993..566143_NEGATIVE 277 91 53 108 65 NC_002950:PG0459|3end_ISPg5,_transposase_Orf1_501517..501667_NEGATIVE 273 39 3 77 32 NC_002950:PG0435|3end_capsular_polysaccharide_biosythesis_protein,_putative_472708..472858_NEGATIVE 270 91 55 74 40 NC_002950:PG1472|3end_hypothetical_protein_1549760..1549910_POSITIVE