Origin IGS: ctctcgttttatatctgagcgaattatgaataaaagccctcgtggaaattttcacagatcataaaaagttctatttcagatttttacaatacgataagcgcacctctacttaggaattgatccggagaaaatcctt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aaggattttctccggatcaattcctaagtagaggtgcgcttatcgtattgtaaaaatctgaaatagaactttttatgatctgtgaaaatttccacgagggcttttattcataattcgctcagatataaaacgagag Mask Tandem Repeat Region ================================================ ctctcgttttatatctgagcgaattatgaataaaagccctcgtggaaattttcacagatcataaaaagttctatttcagatttttacaatacgataagcgcacctctacttaggaattgatccggagaaaatcctt Find is-nt database================================================ Query_seq: PG1149:PG1150|PG1149:PG1150:glycosyl transferase, group 1 family protein:hypothetical protein:->->:1232910..1233045 136 ctctcgttttatatctgagcgaattatgaataaaagccctcgtggaaattttcacagatcataaaaagttctatttcagatttttacaatacgataagcgcacctctacttaggaattgatccggagaaaatcctt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG1149:PG1150|PG1149:PG1150:glycosyl transferase, group 1 family protein:hypothetical protein:->->:1232910..1233045 136 ctctcgttttatatctgagcgaattatgaataaaagccctcgtggaaattttcacagatcataaaaagttctatttcagatttttacaatacgataagcgcacctctacttaggaattgatccggagaaaatcctt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG1149:PG1150|PG1149:PG1150:glycosyl transferase, group 1 family protein:hypothetical protein:->->:1232910..1233045 136 ctctcgttttatatctgagcgaattatgaataaaagccctcgtggaaattttcacagatcataaaaagttctatttcagatttttacaatacgataagcgcacctctacttaggaattgatccggagaaaatcctt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ctctcgttttatatctgagcgaattatgaataaaagccctcgtggaaattttcacagatcataaaaagttctatttcagatttttacaatacgataagcgcacctctacttaggaattgatccggagaaaatcctt Predict ORF larger than 30AA ================================================ ctctcgttttatatctgagcgaattatgaataaaagccctcgtggaaattttcacagatcataaaaagttctatttcagatttttacaatacgataagcgcacctctacttaggaattgatccggagaaaatcctt 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================================================ ctctcgttttatatctgagcgaattatgaataaaagccctcgtggaaattttcacagatcataaaaagttctatttcagatttttacaatacgataagcgcacctctacttaggaattgatccggagaaaatcctt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PG1149:PG1150|PG1149:PG1150:glycosyl transferase, group 1 family protein:hypothetical protein:->->:1232910..1233045 136 ctctcgttttatatctgagcgaattatgaataaaagccctcgtggaaattttcacagatcataaaaagttctatttcagatttttacaatacgataagcgcacctctacttaggaattgatccggagaaaatcctt Intra-Species Hit: Count: 1 Min: 1 Max: 136 Len: 136 Subject: NC_002950_PG1149_PG1150|glycosyl transferase, group 1 family protein:hypothetical protein|POSITIVE:POSITIVE|[1232910,1233045]|136 HSP 1 e-value: 1.0E-71 bit: 270.0 Len: 136 Query Start:1 Query End:136 Subject Strand: POSITIVE Subject Start: 1 Subject End: 136 ctctcgttttatatctgagcgaattatgaataaaagccctcgtggaaattttcacagatcataaaaagttctatttcagatttttacaatacgataagcgcacctctacttaggaattgatccggagaaaatcctt ctctcgttttatatctgagcgaattatgaataaaagccctcgtggaaattttcacagatcataaaaagttctatttcagatttttacaatacgataagcgcacctctacttaggaattgatccggagaaaatcctt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUCUCGUUUUAUAUCUGAGCGAAUUAUGAAUAAAAGCCCUCGUGGAAAUUUUCACAGAUCAUAAAAAGUUCUAUUUCAGAUUUUUACAAUACGAUAAGCGCACCUCUACUUAGGAAUUGAUCCGGAGAAAAUCCUU ...((((((.......)))))).....................(((..(((((.(.(((((..(((((((........))))))).................(((......)))...))))).))))))..))).. (-19.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAGGAUUUUCUCCGGAUCAAUUCCUAAGUAGAGGUGCGCUUAUCGUAUUGUAAAAAUCUGAAAUAGAACUUUUUAUGAUCUGUGAAAAUUUCCACGAGGGCUUUUAUUCAUAAUUCGCUCAGAUAUAAAACGAGAG ..(((..((.(((((((((.............((((((.....)))))).......((((...))))........))))))).)).))..)))....((((..(((....)))...))))................ (-22.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 280 38 4 119 83 NC_002950:PG2202|5end_Holliday_junction_resolvase-like_protein_2309933..2310163_NEGATIVE 266 48 15 50 15 NC_002950:PG1763|5end_ribonuclease_III_1851712..1851942_NEGATIVE 250 44 2 224 182 NC_002950:PG1095|5end_RNA_methyltransferase,_TrmA_family_1160225..1160455_POSITIVE 248 60 15 118 75 NC_002950:PG0767|5end_4-alpha-glucanotransferase_820533..820763_NEGATIVE 244 43 4 184 147 NC_002950:PG1167|5end_hypothetical_protein_1248427..1248657_POSITIVE 244 127 98 124 99 NC_002950:PG0272|5end_CBS_domain_protein_304399..304629_POSITIVE 241 124 84 61 15 NC_002950:PG0991|5end_translation_initiation_factor_IF-3_1052039..1052269_NEGATIVE 238 128 89 55 16 NC_002950:PG0646|5end_iron_compound_ABC_transporter,_ATP-binding_protein_699071..699301_NEGATIVE 236 128 98 126 88 NC_002950:PG0608|5end_hypothetical_protein_662945..663175_POSITIVE 235 126 96 117 84 NC_002950:PG2099|5end_ATP-dependent_RNA_helicase,_DEAD/DEAH_box_family_2207932..2208162_NEGATIVE 233 129 92 192 148 NC_002950:PG1116|5end_methylenetetrahydrofolate_dehydrogenase/methenyltetrahydrofolate_cyclohydrolase_1188931..1189161_POSITIVE 233 128 84 81 39 NC_002950:PG0250|5end_hypothetical_protein_284081..284311_NEGATIVE 232 127 100 106 82 NC_002950:PG1818|5end_hypothetical_protein_1913744..1913974_NEGATIVE 227 125 86 132 92 NC_002950:PG1695|5end_hypothetical_protein_1779440..1779670_POSITIVE 225 44 4 169 125 NC_002950:PG1729|5end_thiol_peroxidase_1818881..1819111_NEGATIVE 225 124 93 55 15 NC_002950:PG0691|5end_NifU-related_protein_747469..747699_NEGATIVE 225 130 83 212 168 NC_002950:PG0529|5end_carbamoyl-phosphate_synthase_small_subunit_574637..574867_POSITIVE 225 126 91 43 8 NC_002950:PG0028|5end_2C-methyl-D-erythritol_2,4-cyclodiphosphate_synthase_33863..34093_POSITIVE 222 60 13 172 122 NC_002950:PG0888|5end_hypothetical_protein_949910..950140_POSITIVE 222 130 92 41 1 NC_002950:PG0030|5end_cytidine_deaminase_35846..36076_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 276 128 90 50 5 NC_002950:PG0309|3end_thiamine_biosynthesis_lipoprotein_ApbE_344010..344160_NEGATIVE 272 127 86 59 27 NC_002950:PG0619|3end_alkyl_hydroperoxide_reductase,_F_subunit_672731..672881_POSITIVE 261 56 14 90 42 NC_002950:PG0340|3end_hypothetical_protein_376436..376586_POSITIVE 250 44 2 140 98 NC_002950:PG1094|3end_phosphomannomutase_1160221..1160371_POSITIVE 249 47 2 74 35 NC_002950:PG0968|3end_Mrr_restriction_system_protein_1027825..1027975_POSITIVE 244 127 98 37 12 NC_002950:PG0271|3end_single-stranded_binding_protein_304392..304542_POSITIVE 238 128 89 47 8 NC_002950:PG0647|3end_iron_compound_ABC_transporter,_permease_protein_699079..699229_NEGATIVE 237 108 69 128 86 NC_002950:PG1371|3end_phosphorylase_family_protein_1452352..1452502_NEGATIVE 236 128 98 95 57 NC_002950:PG0607|3end_hypothetical_protein_662994..663144_POSITIVE 234 126 82 119 79 NC_002950:PG1058|3end_OmpA_family_protein_1126132..1126282_POSITIVE 234 127 92 72 37 NC_002950:PG0537|3end_aminoacyl-histidine_dipeptidase_588394..588544_POSITIVE 233 129 92 68 24 NC_002950:PG1115|3end_signal_recognition_particle_protein_1188887..1189037_POSITIVE 233 128 87 101 46 NC_002950:PG0798|3end_ISPg3,_transposase_853827..853977_POSITIVE 232 56 17 51 5 NC_002950:PG2021|3end_hypothetical_protein_2112921..2113071_NEGATIVE 232 128 98 90 46 NC_002950:PG0933|3end_translation_elongation_factor_G,_putative_992236..992386_POSITIVE 226 55 15 58 11 NC_002950:PG1296|3end_hypothetical_protein_1375329..1375479_POSITIVE 225 44 4 123 79 NC_002950:PG1730|3end_O-methyltransferase_family_protein_1818927..1819077_NEGATIVE 225 128 90 101 51 NC_002950:PG0261|3end_ISPg3,_transposase_293862..294012_NEGATIVE 225 126 91 36 1 NC_002950:PG0027|3end_hypothetical_protein_33936..34086_POSITIVE 223 128 97 57 18 NC_002950:PG0158|3end_competence_protein_F-related_protein_180995..181145_POSITIVE