Origin IGS: cgatgaggattaagtttagaagggtttgaataagggttgcagtgtaagggagaatggtatttttgcttcaactatttgcaaataaaaaaagactgtagatagaaacgaggaatagtaaatagagttgaaatagttcaacctgcattatctattttctcgttttcatctacagtcttttgcgttataaagtta .........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 taactttataacgcaaaagactgtagatgaaaacgagaaaatagataatgcaggttgaactatttcaactctatttactattcctcgtttctatctacagtctttttttatttgcaaatagttgaagcaaaaataccattctcccttacactgcaacccttattcaaacccttctaaacttaatcctcatcg Mask Tandem Repeat Region ================================================ cgatgaggattaagtttagaagggtttgaataagggttgcagtgtaagggagaatggtatttttgcttcaactatttgcaaataaaaaaagactgtagatagaaacgaggaatagtaaatagagttgaaatagttcaacctgcattatctattttctcgttttcatctacagtcttttgcgttataaagtta Find is-nt database================================================ Query_seq: PI0082:PI0083|PI0082:PI0083:conserved hypothetical protein (possible phosphoglycerol transferase):tyrosyl-tRNA synthetase:->->:82772..82963 192 cgatgaggattaagtttagaagggtttgaataagggttgcagtgtaagggagaatggtatttttgcttcaactatttgcaaataaaaaaagactgtagatagaaacgaggaatagtaaatagagttgaaatagttcaacctgcattatctattttctcgttttcatctacagtcttttgcgttataaagtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0082:PI0083|PI0082:PI0083:conserved hypothetical protein (possible phosphoglycerol transferase):tyrosyl-tRNA synthetase:->->:82772..82963 192 cgatgaggattaagtttagaagggtttgaataagggttgcagtgtaagggagaatggtatttttgcttcaactatttgcaaataaaaaaagactgtagatagaaacgaggaatagtaaatagagttgaaatagttcaacctgcattatctattttctcgttttcatctacagtcttttgcgttataaagtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0082:PI0083|PI0082:PI0083:conserved hypothetical protein (possible phosphoglycerol transferase):tyrosyl-tRNA synthetase:->->:82772..82963 192 cgatgaggattaagtttagaagggtttgaataagggttgcagtgtaagggagaatggtatttttgcttcaactatttgcaaataaaaaaagactgtagatagaaacgaggaatagtaaatagagttgaaatagttcaacctgcattatctattttctcgttttcatctacagtcttttgcgttataaagtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 cgatgaggattaagtttagaagggtttgaataagggttgcagtgtaagggagaatggtatttttgcttcaactatttgcaaataaaaaaagactgtagatagaaacgaggaatagtaaatagagttgaaatagttcaacctgcattatctattttctcgttttcatctacagtcttttgcgttataaagtta Predict ORF larger than 30AA ================================================ Protein_Len: 40 Strand: - Start: 19 End: 138 .................. F P K F L P Q L T L S F P I K A E V I Q L Y F F V T S L F S S Y Y I S N F Y N M ...................................................... cgatgaggattaagtttagaagggtttgaataagggttgcagtgtaagggagaatggtatttttgcttcaactatttgcaaataaaaaaagactgtagatagaaacgaggaatagtaaatagagttgaaatagttcaacctgcattatctattttctcgttttcatctacagtcttttgcgttataaagtta Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ PromScan Matrix: RpoD-17 Strand: + Score: 82 Start: 159 End: 188 ..............................................................................................................................................................GTTTTCATCTACAGTCTTTTGCGTTATAAA.... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ cgatgaggattaagtttagaagggtttgaataagggttgcagtgtaagggagaatggtatttttgcttcaactatttgcaaataaaaaaagactgtagatagaaacgaggaatagtaaatagagttgaaatagttcaacctgcattatctattttctcgttttcatctacagtcttttgcgttataaagtta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0082:PI0083|PI0082:PI0083:conserved hypothetical protein (possible phosphoglycerol transferase):tyrosyl-tRNA synthetase:->->:82772..82963 192 cgatgaggattaagtttagaagggtttgaataagggttgcagtgtaagggagaatggtatttttgcttcaactatttgcaaataaaaaaagactgtagatagaaacgaggaatagtaaatagagttgaaatagttcaacctgcattatctattttctcgttttcatctacagtcttttgcgttataaagtta Intra-Species Hit: Count: 1 Min: 1 Max: 192 Len: 192 Subject: pint_PI0082_PI0083|conserved hypothetical protein (possible phosphoglycerol transferase):tyrosyl-tRNA synthetase|POSITIVE:POSITIVE|[82772,82963]|192 HSP 1 e-value: 2.0E-92 bit: 339.0 Len: 192 Query Start:1 Query End:192 Subject Strand: POSITIVE Subject Start: 1 Subject End: 192 cgatgaggattaagtttagaagggtttgaataagggttgcagtgtaagggagaatggtatttttgcttcaactatttgcaaatnnnnnnngactgtagatagaaacgaggaatagtaaatagagttgaaatagttcaacctgcattatctattttctcgttttcatctacagtcttttgcgttataaagtta cgatgaggattaagtttagaagggtttgaataagggttgcagtgtaagggagaatggtatttttgcttcaactatttgcaaataaaaaaagactgtagatagaaacgaggaatagtaaatagagttgaaatagttcaacctgcattatctattttctcgttttcatctacagtcttttgcgttataaagtta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CGAUGAGGAUUAAGUUUAGAAGGGUUUGAAUAAGGGUUGCAGUGUAAGGGAGAAUGGUAUUUUUGCUUCAACUAUUUGCAAAUAAAAAAAGACUGUAGAUAGAAACGAGGAAUAGUAAAUAGAGUUGAAAUAGUUCAACCUGCAUUAUCUAUUUUCUCGUUUUCAUCUACAGUCUUUUGCGUUAUAAAGUUA ..((((.(.....(((((((....))))))).....((((((.(((((.((((((...)))))).)))..))...)))))).....((((((((((((((..((((((((((((((((.(((.((((((....)))))))))..))).))).))))))))))..)))))))))))))).).))))....... (-53.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAACUUUAUAACGCAAAAGACUGUAGAUGAAAACGAGAAAAUAGAUAAUGCAGGUUGAACUAUUUCAACUCUAUUUACUAUUCCUCGUUUCUAUCUACAGUCUUUUUUUAUUUGCAAAUAGUUGAAGCAAAAAUACCAUUCUCCCUUACACUGCAACCCUUAUUCAAACCCUUCUAAACUUAAUCCUCAUCG ............(((((((((((((((((.(((((((..(((((.(((....(((((((....)))))))....)))))))).))))))).)))))))))))))).....(((((...........)))))....................)))...................................... (-42.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 324 68 21 191 146 pint:PI1199|5end_possible_acetyltransferase_1115139..1115369_POSITIVE 319 69 21 156 100 pint:PI2018|5end_50S_ribosomal_protein_L34_1975757..1975987_POSITIVE 317 50 6 59 4 pint:PI1972|5end_hypothetical_protein_1929629..1929859_POSITIVE 314 66 21 132 83 pint:PI0782|5end_beta-lactamase_induction_signal_transducer,_AmpG_protein_720573..720803_POSITIVE 301 80 33 144 93 pint:PI1857|5end_guanylate_kinase_1803816..1804046_POSITIVE 287 73 36 216 174 pint:PI1407|5end_conserved_hypothetical_protein_1327693..1327923_POSITIVE 280 75 43 49 15 pint:PI2172|5end_hypothetical_protein_2113819..2114049_POSITIVE 279 60 16 60 20 pint:PI1969|5end_hypothetical_protein_1925496..1925726_POSITIVE 272 184 141 88 50 pint:PI0695|5end_xanthine/uracil_permease_family_protein_631413..631643_POSITIVE 271 58 19 46 7 pint:PI0233|5end_membrane_protein,_possible_exporter_231844..232074_POSITIVE 267 79 39 176 142 pint:PI0480|5end_preprotein_translocase,_SecY_subunit_441576..441806_POSITIVE 265 50 1 127 63 pint:PI2073|5end_mobilization_protein_2031995..2032225_POSITIVE 263 84 41 225 178 pint:PI1343|5end_conserved_hypothetical_protein_1257782..1258012_POSITIVE 262 110 61 47 5 pint:PI1441|5end_hypothetical_protein_1363129..1363359_POSITIVE 261 60 18 160 125 pint:PI0951|5end_hypothetical_protein_884526..884756_POSITIVE 259 79 35 130 84 pint:PI0889|5end_pyruvate_kinase_818758..818988_POSITIVE 259 109 61 163 120 pint:PI0116|5end_conserved_hypothetical_protein_110213..110443_POSITIVE 258 58 12 63 21 pint:PI1816|5end_acid_phosphatase_1754646..1754876_POSITIVE 257 67 24 219 173 pint:PI1202|5end_UvrD/REP_helicase_1118139..1118369_POSITIVE 257 79 33 194 149 pint:PI0968|5end_hypothetical_protein_895946..896176_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 314 66 21 66 17 pint:PI0781|3end_UDP-glucose/GDP-mannose_dehydrogenase_family;_probable__UDP-glucose_6-dehydrogenase_720587..720737_POSITIVE 301 80 33 133 82 pint:PI1856|3end_nicotinate-nucleotide_adenylyltransferase_1803885..1804035_POSITIVE 283 49 1 80 42 pint:PI0721|3end_hypothetical_protein_654982..655132_POSITIVE 280 75 43 141 107 pint:PI2172|3end_hypothetical_protein_2113991..2114141_POSITIVE 280 75 43 114 80 pint:PI2173|3end_hypothetical_protein_2113964..2114114_POSITIVE 279 60 16 48 8 pint:PI1968|3end_hypothetical_protein_1925564..1925714_POSITIVE 256 79 41 138 90 pint:PI0194|3end_2-amino-3-ketobutyrate_coenzyme_A_ligase_(glycine_C-acetyltransferase)_186957..187107_POSITIVE 253 110 62 80 34 pint:PI0084|3end_conserved_hypothetical_protein_84520..84670_POSITIVE 252 57 18 137 99 pint:PI1205|3end_hypothetical_protein_1127240..1127390_POSITIVE 252 57 18 106 68 pint:PI1207|3end_hypothtical_protein_1127209..1127359_POSITIVE 252 59 19 127 83 pint:PI0524|3end_meso-diaminopimelate_D-dehydrogenase_480849..480999_POSITIVE 248 80 32 82 35 pint:PI0827|3end_hypothetical_protein_764163..764313_POSITIVE 248 80 32 115 68 pint:PI0825|3end_hypothetical_protein_764196..764346_POSITIVE 244 180 135 79 40 pint:PI0379|3end_conserved_hypothetical_protein_350239..350389_POSITIVE 243 62 23 120 64 pint:PI1297|3end_conserved_hypothetical_protein_1211264..1211414_POSITIVE 241 160 112 53 10 pint:PI0675|3end_hypothetical_protein_613957..614107_POSITIVE 239 66 21 97 45 pint:PI1179|3end_adenylosuccinate_synthetase_1101823..1101973_POSITIVE 239 143 101 134 93 pint:PI0715|3end_hypothetical_protein_652621..652771_POSITIVE 239 143 101 118 77 pint:PI0716|3end_conserved_hypothetical_protein_652605..652755_POSITIVE 237 70 21 90 42 pint:PI1669|3end_hypothetical_protein_1583805..1583955_POSITIVE