Origin IGS: agtaacagtcacatttgcccgctgctaaccgaagcgttcggccgcaaaggtaagaataatccggggggagtagacaggacaaagaaaaggacacttccgttggagagctgagggagcgtggcagtcacatgggaataccatcgggggaaacggataaatatggtagttttgtctgtaaataagtaagcataaacaccata .........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 tatggtgtttatgcttacttatttacagacaaaactaccatatttatccgtttcccccgatggtattcccatgtgactgccacgctccctcagctctccaacggaagtgtccttttctttgtcctgtctactccccccggattattcttacctttgcggccgaacgcttcggttagcagcgggcaaatgtgactgttact Mask Tandem Repeat Region ================================================ agtaacagtcacatttgcccgctgctaaccgaagcgttcggccgcaaaggtaagaataatccggggggagtagacaggacaaagaaaaggacacttccgttggagagctgagggagcgtggcagtcacatgggaataccatcgggggaaacggataaatatggtagttttgtctgtaaataagtaagcataaacaccata Find is-nt database================================================ Query_seq: PG2034:PG2035|PG2034:PG2035:oxidoreductase, FAD-binding, putative:tRNA (guanine-N(1)-)-methyltransferase:<-->:2135792..2135991 200 agtaacagtcacatttgcccgctgctaaccgaagcgttcggccgcaaaggtaagaataatccggggggagtagacaggacaaagaaaaggacacttccgttggagagctgagggagcgtggcagtcacatgggaataccatcgggggaaacggataaatatggtagttttgtctgtaaataagtaagcataaacaccata Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG2034:PG2035|PG2034:PG2035:oxidoreductase, FAD-binding, putative:tRNA (guanine-N(1)-)-methyltransferase:<-->:2135792..2135991 200 agtaacagtcacatttgcccgctgctaaccgaagcgttcggccgcaaaggtaagaataatccggggggagtagacaggacaaagaaaaggacacttccgttggagagctgagggagcgtggcagtcacatgggaataccatcgggggaaacggataaatatggtagttttgtctgtaaataagtaagcataaacaccata Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG2034:PG2035|PG2034:PG2035:oxidoreductase, FAD-binding, putative:tRNA (guanine-N(1)-)-methyltransferase:<-->:2135792..2135991 200 agtaacagtcacatttgcccgctgctaaccgaagcgttcggccgcaaaggtaagaataatccggggggagtagacaggacaaagaaaaggacacttccgttggagagctgagggagcgtggcagtcacatgggaataccatcgggggaaacggataaatatggtagttttgtctgtaaataagtaagcataaacaccata Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 agtaacagtcacatttgcccgctgctaaccgaagcgttcggccgcaaaggtaagaataatccggggggagtagacaggacaaagaaaaggacacttccgttggagagctgagggagcgtggcagtcacatgggaataccatcgggggaaacggataaatatggtagttttgtctgtaaataagtaagcataaacaccata Predict ORF larger than 30AA ================================================ Protein_Len: 32 Strand: + Start: 13 End: 108 ............ M C P L L T E A F G R K G K N N P G G V D R T K K R T L P L E S ............................................................................................ Protein_Len: 51 Strand: - Start: 28 End: 180 ........................... G F R E A A F T L I I R P S Y V P C L F P C K R Q L A S P A H C D C P F V M P P F P Y I H Y N Q R Y M .................... Protein_Len: 50 Strand: - Start: 12 End: 161 ........... M Q G S S V S A N P R L P L F L G P P T S L V F F L V S G N S L Q P L T A T V H S Y W R P F R I F M ....................................... Protein_Len: 41 Strand: - Start: 2 End: 124 . Y C D C K G A A L R L T R G C L Y S Y D P P L L C S L S F S V E T P S S L S R P M ............................................................................ agtaacagtcacatttgcccgctgctaaccgaagcgttcggccgcaaaggtaagaataatccggggggagtagacaggacaaagaaaaggacacttccgttggagagctgagggagcgtggcagtcacatgggaataccatcgggggaaacggataaatatggtagttttgtctgtaaataagtaagcataaacaccata 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================================================ agtaacagtcacatttgcccgctgctaaccgaagcgttcggccgcaaaggtaagaataatccggggggagtagacaggacaaagaaaaggacacttccgttggagagctgagggagcgtggcagtcacatgggaataccatcgggggaaacggataaatatggtagttttgtctgtaaataagtaagcataaacaccata Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PG2034:PG2035|PG2034:PG2035:oxidoreductase, FAD-binding, putative:tRNA (guanine-N(1)-)-methyltransferase:<-->:2135792..2135991 200 agtaacagtcacatttgcccgctgctaaccgaagcgttcggccgcaaaggtaagaataatccggggggagtagacaggacaaagaaaaggacacttccgttggagagctgagggagcgtggcagtcacatgggaataccatcgggggaaacggataaatatggtagttttgtctgtaaataagtaagcataaacaccata Intra-Species Hit: Count: 1 Min: 1 Max: 200 Len: 200 Subject: NC_002950_PG2034_PG2035|oxidoreductase, FAD-binding, putative:tRNA (guanine-N(1)-)- methyltransferase|NEGATIVE:POSITIVE|[2135792, 2135991]|200 HSP 1 e-value: 1.0E-109 bit: 396.0 Len: 200 Query Start:1 Query End:200 Subject Strand: POSITIVE Subject Start: 1 Subject End: 200 agtaacagtcacatttgcccgctgctaaccgaagcgttcggccgcaaaggtaagaataatccggggggagtagacaggacaaagaaaaggacacttccgttggagagctgagggagcgtggcagtcacatgggaataccatcgggggaaacggataaatatggtagttttgtctgtaaataagtaagcataaacaccata agtaacagtcacatttgcccgctgctaaccgaagcgttcggccgcaaaggtaagaataatccggggggagtagacaggacaaagaaaaggacacttccgttggagagctgagggagcgtggcagtcacatgggaataccatcgggggaaacggataaatatggtagttttgtctgtaaataagtaagcataaacaccata Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGUAACAGUCACAUUUGCCCGCUGCUAACCGAAGCGUUCGGCCGCAAAGGUAAGAAUAAUCCGGGGGGAGUAGACAGGACAAAGAAAAGGACACUUCCGUUGGAGAGCUGAGGGAGCGUGGCAGUCACAUGGGAAUACCAUCGGGGGAAACGGAUAAAUAUGGUAGUUUUGUCUGUAAAUAAGUAAGCAUAAACACCAUA .......(((...(((.((((((((((.((..(((.(((.(((.....)))..)))...(((((.((((((.....(..(........)..))))))).)))))..)))..)).....))))))....((((.....)))))))).)))...)))...((((((.((((((..((........))..)).)))))))))) (-53.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAUGGUGUUUAUGCUUACUUAUUUACAGACAAAACUACCAUAUUUAUCCGUUUCCCCCGAUGGUAUUCCCAUGUGACUGCCACGCUCCCUCAGCUCUCCAACGGAAGUGUCCUUUUCUUUGUCCUGUCUACUCCCCCCGGAUUAUUCUUACCUUUGCGGCCGAACGCUUCGGUUAGCAGCGGGCAAAUGUGACUGUUACU ((((((((((.((((...........)).)))))).))))))....((((((........(((((.((......)).))))).(((.....))).....))))))...((((.....(((((((.......(((....)))............((((((((((.....)))))).)))).))))))).).)))....... (-40.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 1075 70 21 161 112 NC_002950:PG2034|5end_oxidoreductase,_FAD-binding,_putative_2135701..2135931_NEGATIVE 421 148 101 161 110 NC_002950:PG0441|5end_hypothetical_protein_478734..478964_POSITIVE 402 131 92 207 147 NC_002950:PG0736|5end_ribonuclease_HII_785608..785838_POSITIVE 396 60 13 171 126 NC_002950:PG1758|5end_ribosomal_protein_S15_1845185..1845415_POSITIVE 385 50 6 211 151 NC_002950:PG1466|5end_hypothetical_protein_1542623..1542853_POSITIVE 378 70 21 134 79 NC_002950:PG1251|5end_hypothetical_protein_1327779..1328009_POSITIVE 371 147 105 219 169 NC_002950:PG0126|5end_type_I_phosphodiesterase/nucleotide_pyrophosphatase_family_protein_148018..148248_NEGATIVE 369 140 95 182 126 NC_002950:PG2001|5end_signal_peptidase_I_2090855..2091085_NEGATIVE 368 50 7 53 3 NC_002950:PG0491|5end_hypothetical_protein_532184..532414_POSITIVE 364 75 31 229 165 NC_002950:PG1641|5end_phosphotyrosine_protein_phosphatase_1721763..1721993_NEGATIVE 362 110 61 87 21 NC_002950:PG1622|5end_DNA_topoisomerase_IV_subunit_A_1704114..1704344_NEGATIVE 362 45 1 195 130 NC_002950:PG0986|5end_hypothetical_protein_1047426..1047656_POSITIVE 361 50 6 60 10 NC_002950:PG0593|5end_htrA_protein_650362..650592_POSITIVE 360 68 22 63 4 NC_002950:PG1128|5end_exodeoxyribonuclease_VII_large_subunit_1203737..1203967_POSITIVE 359 148 101 213 149 NC_002950:PG0143|5end_hydrolase,_carbon-nitrogen_family_166625..166855_NEGATIVE 358 55 14 188 138 NC_002950:PG0809|5end_hypothetical_protein_872014..872244_NEGATIVE 357 50 2 53 3 NC_002950:PG2008|5end_TonB-dependent_receptor,_putative_2095243..2095473_POSITIVE 356 143 101 168 112 NC_002950:PG1110|5end_hypothetical_protein_1182741..1182971_POSITIVE 356 135 94 78 34 NC_002950:PG0446|5end_thiF_protein_486599..486829_POSITIVE 353 70 22 189 140 NC_002950:PG1748|5end_transketolase_1834929..1835159_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 400 70 21 107 43 NC_002950:PG2006|3end_hypothetical_protein_2095026..2095176_POSITIVE 376 45 6 149 95 NC_002950:PG0361|3end_hypothetical_protein_395481..395631_POSITIVE 362 122 81 97 46 NC_002950:PG0678|3end_pyrazinamidase/nicotinamidase,_putative_729471..729621_POSITIVE 360 78 33 136 82 NC_002950:PG0560|3end_hypothetical_protein_617748..617898_POSITIVE 358 75 31 117 55 NC_002950:PG1948|3end_lipoprotein,_putative_2037940..2038090_POSITIVE 353 124 83 74 36 NC_002950:PG0158|3end_competence_protein_F-related_protein_180995..181145_POSITIVE 352 69 21 52 5 NC_002950:PG0490|3end_hypothetical_protein_532248..532398_POSITIVE 349 44 11 73 29 NC_002950:PG1162|3end_ATP:cob(I)alamin_adenosyltransferase,_putative_1241473..1241623_NEGATIVE 348 70 22 111 56 NC_002950:PG1133|3end_hypothetical_protein_1214103..1214253_POSITIVE 345 126 88 47 2 NC_002950:PG2158|3end_hypothetical_protein_2264473..2264623_POSITIVE 345 70 24 79 24 NC_002950:PG1723|3end_ribosomal_protein_S20_1813403..1813553_POSITIVE 345 45 7 131 81 NC_002950:PG0443|3end_hemagglutinin-related_protein_483147..483297_POSITIVE 344 148 102 104 64 NC_002950:PG0723|3end_hypothetical_protein_775355..775505_POSITIVE 339 77 31 50 3 NC_002950:PG1820|3end_cytochrome_c_nitrite_reductase,_catalytic_subunit_NrfA_1914393..1914543_NEGATIVE 337 127 92 151 113 NC_002950:PG2082|3end_POT_family_protein_2181843..2181993_NEGATIVE 337 90 42 87 31 NC_002950:PG0739|3end_ribonuclease_Z_787941..788091_POSITIVE 336 78 31 106 56 NC_002950:PG0164|3end_hypothetical_protein_187081..187231_NEGATIVE 335 70 21 132 80 NC_002950:PG0424|3end_hypothetical_protein_463213..463363_POSITIVE 334 148 101 134 78 NC_002950:PG1714|3end_pyridoxamine-phosphate_oxidase_1801848..1801998_NEGATIVE 333 68 23 72 31 NC_002950:PG0915|3end_hypothetical_protein_977057..977207_POSITIVE