Origin IGS: aaactccatatacgctgctcggacgctccggcagatgattgtccgatcgtataggaagtattctaacgaggattcgacagagacaggcgtatcttcccgatcaaaaaacaaaaagagctgcgccgaaatggaagtttcggcgcagctccaatgaaggtgtaacgagagtattttctctcg .........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 cgagagaaaatactctcgttacaccttcattggagctgcgccgaaacttccatttcggcgcagctctttttgttttttgatcgggaagatacgcctgtctctgtcgaatcctcgttagaatacttcctatacgatcggacaatcatctgccggagcgtccgagcagcgtatatggagttt Mask Tandem Repeat Region ================================================ aaactccatatacgctgctcggacgctccggcagatgattgtccgatcgtataggaagtattctaacgaggattcgacagagacaggcgtatcttcccgatcaaaaaacaaaaagagctgcgccgaaatggaagtttcggcgcagctccaatgaaggtgtaacgagagtattttctctcg Find is-nt database================================================ Query_seq: PG0534:PG0535|PG0534:PG0535:hypothetical protein:hypothetical protein:-><-:585866..586045 180 aaactccatatacgctgctcggacgctccggcagatgattgtccgatcgtataggaagtattctaacgaggattcgacagagacaggcgtatcttcccgatcaaaaaacaaaaagagctgcgccgaaatggaagtttcggcgcagctccaatgaaggtgtaacgagagtattttctctcg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG0534:PG0535|PG0534:PG0535:hypothetical protein:hypothetical protein:-><-:585866..586045 180 aaactccatatacgctgctcggacgctccggcagatgattgtccgatcgtataggaagtattctaacgaggattcgacagagacaggcgtatcttcccgatcaaaaaacaaaaagagctgcgccgaaatggaagtttcggcgcagctccaatgaaggtgtaacgagagtattttctctcg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG0534:PG0535|PG0534:PG0535:hypothetical protein:hypothetical protein:-><-:585866..586045 180 aaactccatatacgctgctcggacgctccggcagatgattgtccgatcgtataggaagtattctaacgaggattcgacagagacaggcgtatcttcccgatcaaaaaacaaaaagagctgcgccgaaatggaagtttcggcgcagctccaatgaaggtgtaacgagagtattttctctcg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aaactccatatacgctgctcggacgctccggcagatgattgtccgatcgtataggaagtattctaacgaggattcgacagagacaggcgtatcttcccgatcaaaaaacaaaaagagctgcgccgaaatggaagtttcggcgcagctccaatgaaggtgtaacgagagtattttctctcg Predict ORF larger than 30AA ================================================ Protein_Len: 48 Strand: + Start: 8 End: 151 ....... M Y A A R T L R Q M I V R S Y R K Y S N E D S T E T G V S S R S K N K K S C A E M E V S A Q L Q ............................. Protein_Len: 47 Strand: + Start: 39 End: 179 ...................................... M S D R I G S I L T R I R Q R Q A Y L P D Q K T K R A A P K W K F R R S S N E G V T R V F S L . Protein_Len: 57 Strand: - Start: 1 End: 171 F E M Y A A R V S R C I I T R D Y L F Y E L S S E V S V P T D E R D F F L F L Q A S I S T E A C S W H L H L S L M ......... aaactccatatacgctgctcggacgctccggcagatgattgtccgatcgtataggaagtattctaacgaggattcgacagagacaggcgtatcttcccgatcaaaaaacaaaaagagctgcgccgaaatggaagtttcggcgcagctccaatgaaggtgtaacgagagtattttctctcg 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================================================ aaactccatatacgctgctcggacgctccggcagatgattgtccgatcgtataggaagtattctaacgaggattcgacagagacaggcgtatcttcccgatcaaaaaacaaaaagagctgcgccgaaatggaagtttcggcgcagctccaatgaaggtgtaacgagagtattttctctcg Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 100 HP_score: -21.2 Tail_Score: -5.77571 Start: 115 End: 148 Full_Region: gttacaccttcattg gagctgcgccgaaa cttcca tttcggcgcagctc tttttgttttttgat ..................................................................................................................gagctgcgccgaaacttccatttcggcgcagctc................................ Find igs database================================================ Query_seq: PG0534:PG0535|PG0534:PG0535:hypothetical protein:hypothetical protein:-><-:585866..586045 180 aaactccatatacgctgctcggacgctccggcagatgattgtccgatcgtataggaagtattctaacgaggattcgacagagacaggcgtatcttcccgatcaaaaaacaaaaagagctgcgccgaaatggaagtttcggcgcagctccaatgaaggtgtaacgagagtattttctctcg Intra-Species Hit: Count: 1 Min: 1 Max: 180 Len: 180 Subject: NC_002950_PG0534_PG0535|hypothetical protein:hypothetical protein|POSITIVE:NEGATIVE|[585866,586045]|180 HSP 1 e-value: 2.0E-76 bit: 285.0 Len: 180 Query Start:1 Query End:180 Subject Strand: POSITIVE Subject Start: 1 Subject End: 180 aaactccatatacgctgctcggacgctccggcagatgattgtccgatcgtataggaagtattctaacgaggattcgacagagacaggcgtatcttcccgatcnnnnnnnnnnnngagctgcgccgaaatggaagtttcggcgcagctccaatgaaggtgtaacgagagtattttctctcg aaactccatatacgctgctcggacgctccggcagatgattgtccgatcgtataggaagtattctaacgaggattcgacagagacaggcgtatcttcccgatcaaaaaacaaaaagagctgcgccgaaatggaagtttcggcgcagctccaatgaaggtgtaacgagagtattttctctcg Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAACUCCAUAUACGCUGCUCGGACGCUCCGGCAGAUGAUUGUCCGAUCGUAUAGGAAGUAUUCUAACGAGGAUUCGACAGAGACAGGCGUAUCUUCCCGAUCAAAAAACAAAAAGAGCUGCGCCGAAAUGGAAGUUUCGGCGCAGCUCCAAUGAAGGUGUAACGAGAGUAUUUUCUCUCG ..((.((.....((((((.(((.....))))))).)).......(((((..(((((....)))))..((((((.((.(........))).)))))).)))))............(((((((((((((((....))))))))))))))).......)).))..((((((......)))))) (-65.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CGAGAGAAAAUACUCUCGUUACACCUUCAUUGGAGCUGCGCCGAAACUUCCAUUUCGGCGCAGCUCUUUUUGUUUUUUGAUCGGGAAGAUACGCCUGUCUCUGUCGAAUCCUCGUUAGAAUACUUCCUAUACGAUCGGACAAUCAUCUGCCGGAGCGUCCGAGCAGCGUAUAUGGAGUUU ((((((......)))))).........((..(((((((((((((((......)))))))))))))))...))..(((((((.((((.((((..........))))...)))).))))))).(((((.((((((.((((((..((........))..))))))....)))))).))))).. (-67.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 418 50 5 193 150 NC_002950:PG0158|5end_competence_protein_F-related_protein_180175..180405_POSITIVE 407 160 114 60 1 NC_002950:PG0933|5end_translation_elongation_factor_G,_putative_989997..990227_POSITIVE 406 54 14 230 191 NC_002950:PG0986|5end_hypothetical_protein_1047426..1047656_POSITIVE 402 55 13 66 23 NC_002950:PG0143|5end_hydrolase,_carbon-nitrogen_family_166625..166855_NEGATIVE 400 55 16 79 28 NC_002950:PG0701|5end_cobinamide_kinase/cobinamide_phosphate_guanylyltransferase_756511..756741_POSITIVE 397 58 17 44 6 NC_002950:PG2092|5end_hypothetical_protein_2192910..2193140_NEGATIVE 396 56 14 171 118 NC_002950:PG1476|5end_conjugative_transposon_protein_TraM_1553219..1553449_NEGATIVE 394 180 131 184 129 NC_002950:PG0374|5end_hypothetical_protein_405564..405794_NEGATIVE 391 158 114 63 4 NC_002950:PG1022|5end_hypothetical_protein_1083537..1083767_POSITIVE 385 50 4 189 146 NC_002950:PG2187|5end_1,4-dihydroxy-2-naphthoate_octaprenyltransferase_2294643..2294873_NEGATIVE 375 57 12 192 133 NC_002950:PG1855|5end_carboxyl-terminal_protease_1955476..1955706_NEGATIVE 374 42 11 226 195 NC_002950:PG0320|5end_hypothetical_protein_353409..353639_POSITIVE 371 149 106 215 167 NC_002950:PG1739|5end_hypothetical_protein_1825709..1825939_NEGATIVE 370 157 117 58 2 NC_002950:PG0624|5end_hypothetical_protein_678078..678308_POSITIVE 368 49 4 50 7 NC_002950:PG0223|5end_exonuclease_257610..257840_NEGATIVE 366 48 6 188 141 NC_002950:PG0030|5end_cytidine_deaminase_35846..36076_POSITIVE 365 46 5 202 138 NC_002950:PG1220|5end_erythronate-4-phosphate_dehydrogenase_1296986..1297216_POSITIVE 361 46 6 188 147 NC_002950:PG1116|5end_methylenetetrahydrofolate_dehydrogenase/methenyltetrahydrofolate_cyclohydrolase_1188931..1189161_POSITIVE 355 49 13 41 2 NC_002950:PG1966|5end_hypothetical_protein_2056924..2057154_NEGATIVE 352 55 13 49 16 NC_002950:PG0885|5end_phospho-2-dehydro-3-deoxyheptonate_aldolase/chorismate_mutase_947745..947975_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 469 148 109 67 29 NC_002950:PG0506|3end_arginine-specific_cysteine_proteinase_547625..547775_POSITIVE 404 50 4 97 38 NC_002950:PG0334|3end_glycosyl_transferase,_group_2_family_protein_368792..368942_NEGATIVE 402 55 13 48 5 NC_002950:PG0144|3end_hypothetical_protein_166643..166793_NEGATIVE 393 160 111 55 3 NC_002950:PG1950|3end_hypothetical_protein_2040840..2040990_POSITIVE 381 154 111 71 30 NC_002950:PG2167|3end_immunoreactive_53_kDa_antigen_PG123_2272104..2272254_NEGATIVE 371 149 106 68 20 NC_002950:PG1741|3end_aspartate_ammonia-lyase_1825856..1826006_NEGATIVE 368 49 4 46 3 NC_002950:PG0224|3end_hypothetical_protein_257614..257764_NEGATIVE 361 46 6 64 23 NC_002950:PG1115|3end_signal_recognition_particle_protein_1188887..1189037_POSITIVE 358 149 112 38 3 NC_002950:PG0566|3end_DNA-binding_protein,_histone-like_family_622935..623085_NEGATIVE 356 157 115 44 2 NC_002950:PG1020|3end_hypothetical_protein_1083458..1083608_POSITIVE 352 52 14 123 90 NC_002950:PG2091|3end_dihydroneopterin_aldolase_2191610..2191760_POSITIVE 349 148 113 56 16 NC_002950:PG2010|3end_phosphomannomutase,_putative_2100952..2101102_POSITIVE 347 159 114 51 6 NC_002950:PG1297|3end_ribosomal_protein_S1_1377710..1377860_POSITIVE 340 58 15 130 82 NC_002950:PG2171|3end_D-isomer_specific_2-hydroxyacid_dehydrogenase_family_protein_2278013..2278163_NEGATIVE 339 159 114 51 8 NC_002950:PG0433|3end_tetrapyrrole_methylase_family_protein_470683..470833_NEGATIVE 337 49 12 151 118 NC_002950:PG0381|3end_cell_volume_regulation_protein_CvrA_411185..411335_NEGATIVE 335 157 113 53 7 NC_002950:PG0619|3end_alkyl_hydroperoxide_reductase,_F_subunit_672731..672881_POSITIVE 333 48 3 66 15 NC_002950:PG1852|3end_exonuclease_1951194..1951344_NEGATIVE 332 49 13 151 114 NC_002950:PG0676|3end_oxidoreductase,_short_chain_dehydrogenase/reductase_family_726514..726664_NEGATIVE 332 50 16 137 98 NC_002950:PG0254|3end_transcription_elongation_factor_NusA_286526..286676_POSITIVE