Origin IGS: gaggtaacagcaaactattaggaatatcgtcagaaatacctaattccatccaaataagtgaaaagaataccctaaggtaggtattggcctgtctgatggcggccgatacctttgccgtcgctaataacca .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tggttattagcgacggcaaaggtatcggccgccatcagacaggccaatacctaccttagggtattcttttcacttatttggatggaattaggtatttctgacgatattcctaatagtttgctgttacctc Mask Tandem Repeat Region ================================================ gaggtaacagcaaactattaggaatatcgtcagaaatacctaattccatccaaataagtgaaaagaataccctaaggtaggtattggcctgtctgatggcggccgatacctttgccgtcgctaataacca Find is-nt database================================================ Query_seq: PG0494:PG0495|PG0494:PG0495:hypothetical protein:hypothetical protein:<-->:535457..535586 130 gaggtaacagcaaactattaggaatatcgtcagaaatacctaattccatccaaataagtgaaaagaataccctaaggtaggtattggcctgtctgatggcggccgatacctttgccgtcgctaataacca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG0494:PG0495|PG0494:PG0495:hypothetical protein:hypothetical protein:<-->:535457..535586 130 gaggtaacagcaaactattaggaatatcgtcagaaatacctaattccatccaaataagtgaaaagaataccctaaggtaggtattggcctgtctgatggcggccgatacctttgccgtcgctaataacca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG0494:PG0495|PG0494:PG0495:hypothetical protein:hypothetical protein:<-->:535457..535586 130 gaggtaacagcaaactattaggaatatcgtcagaaatacctaattccatccaaataagtgaaaagaataccctaaggtaggtattggcctgtctgatggcggccgatacctttgccgtcgctaataacca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gaggtaacagcaaactattaggaatatcgtcagaaatacctaattccatccaaataagtgaaaagaataccctaaggtaggtattggcctgtctgatggcggccgatacctttgccgtcgctaataacca Predict ORF larger than 30AA ================================================ Protein_Len: 32 Strand: - Start: 2 End: 97 . P L L L S N P I D D S I G L E M W I L S F F V R L Y T N A Q R M ................................. gaggtaacagcaaactattaggaatatcgtcagaaatacctaattccatccaaataagtgaaaagaataccctaaggtaggtattggcctgtctgatggcggccgatacctttgccgtcgctaataacca 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================================================ gaggtaacagcaaactattaggaatatcgtcagaaatacctaattccatccaaataagtgaaaagaataccctaaggtaggtattggcctgtctgatggcggccgatacctttgccgtcgctaataacca Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 82 HP_score: -10.5 Tail_Score: -3.61356 Start: 80 End: 110 Full_Region: GAATACCCTAAGGTA GGTATTGGCCTGTC TGAT GGCGGCCGATACC TTTGCCGTCGCTAAT ...............................................................................GGTATTGGCCTGTCTGATGGCGGCCGATACC.................... Find igs database================================================ Query_seq: PG0494:PG0495|PG0494:PG0495:hypothetical protein:hypothetical protein:<-->:535457..535586 130 gaggtaacagcaaactattaggaatatcgtcagaaatacctaattccatccaaataagtgaaaagaataccctaaggtaggtattggcctgtctgatggcggccgatacctttgccgtcgctaataacca Intra-Species Hit: Count: 1 Min: 1 Max: 130 Len: 130 Subject: NC_002950_PG0494_PG0495|hypothetical protein:hypothetical protein|NEGATIVE:POSITIVE|[535457,535586]|130 HSP 1 e-value: 4.0E-68 bit: 258.0 Len: 130 Query Start:1 Query End:130 Subject Strand: POSITIVE Subject Start: 1 Subject End: 130 gaggtaacagcaaactattaggaatatcgtcagaaatacctaattccatccaaataagtgaaaagaataccctaaggtaggtattggcctgtctgatggcggccgatacctttgccgtcgctaataacca gaggtaacagcaaactattaggaatatcgtcagaaatacctaattccatccaaataagtgaaaagaataccctaaggtaggtattggcctgtctgatggcggccgatacctttgccgtcgctaataacca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAGGUAACAGCAAACUAUUAGGAAUAUCGUCAGAAAUACCUAAUUCCAUCCAAAUAAGUGAAAAGAAUACCCUAAGGUAGGUAUUGGCCUGUCUGAUGGCGGCCGAUACCUUUGCCGUCGCUAAUAACCA ..(((...........((((((.((.((....)).)).))))))............(((((..((......))..((((((((((((((.(((....))))))))))))))..))).)))))....))). (-38.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGGUUAUUAGCGACGGCAAAGGUAUCGGCCGCCAUCAGACAGGCCAAUACCUACCUUAGGGUAUUCUUUUCACUUAUUUGGAUGGAAUUAGGUAUUUCUGACGAUAUUCCUAAUAGUUUGCUGUUACCUC .(((...((((((..((..((((((.((((...........)))).))))))...((((((..((((.((((......)))).))))(((((....)))))......))))))..))))))))..))).. (-34.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 1082 120 71 211 162 NC_002950:PG0494|5end_hypothetical_protein_535366..535596_NEGATIVE 426 130 84 104 36 NC_002950:PG0714|5end_copper_homeostasis_protein_CutC_768671..768901_NEGATIVE 405 122 86 113 67 NC_002950:PG0607|5end_hypothetical_protein_662552..662782_POSITIVE 404 130 82 185 136 NC_002950:PG2126|5end_conserved_hypothetical_protein_TIGR00044_2233112..2233342_NEGATIVE 391 117 71 189 138 NC_002950:PG0230|5end_transaldolase_265372..265602_POSITIVE 389 119 75 221 185 NC_002950:PG1498|5end_hypothetical_protein_1574656..1574886_POSITIVE 384 120 71 68 21 NC_002950:PG0802|5end_alpha_keto_acid_dehydrogenase_complex,_E3_component,_lipoamide_dehydrogenase_859722..859952_NEGATIVE 378 130 81 191 142 NC_002950:PG1125|5end_hypothetical_protein_1201727..1201957_NEGATIVE 375 120 75 44 7 NC_002950:PG0736|5end_ribonuclease_HII_785608..785838_POSITIVE 373 119 75 170 128 NC_002950:PG0212|5end_precorrin-6Y_C5,15-methyltransferase,_decarboxylating_249065..249295_NEGATIVE 372 117 75 206 165 NC_002950:PG2189|5end_aspartate_kinase_2297151..2297381_NEGATIVE 368 118 76 161 116 NC_002950:PG0338|5end_hypothetical_protein_371530..371760_POSITIVE 367 118 77 58 2 NC_002950:PG0170|5end_methionyl-tRNA_synthetase_189652..189882_POSITIVE 366 122 82 229 183 NC_002950:PG1392|5end_rod_shape-determining_protein_RodA,_putative_1474416..1474646_NEGATIVE 366 120 75 93 52 NC_002950:PG0934|5end_hypothetical_protein_994318..994548_NEGATIVE 361 120 80 53 11 NC_002950:PG0724|5end_prolyl_oligopeptidase_family_protein_775229..775459_POSITIVE 361 119 71 68 3 NC_002950:PG0593|5end_htrA_protein_650362..650592_POSITIVE 354 119 76 170 118 NC_002950:PG1160|5end_L-threonine-O-3-phosphate_decarboxylase,_putative_1239988..1240218_NEGATIVE 353 119 74 217 171 NC_002950:PG1754|5end_hypothetical_protein_1839679..1839909_POSITIVE 349 118 71 223 173 NC_002950:PG1269|5end_delta-1-pyrroline-5-carboxylate_dehydrogenase_1349201..1349431_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 434 120 75 112 74 NC_002950:PG1715|3end_hypothetical_protein_1803393..1803543_NEGATIVE 426 130 84 99 31 NC_002950:PG0715|3end_transporter_768676..768826_NEGATIVE 391 117 71 87 36 NC_002950:PG0229|3end_hypothetical_protein_265350..265500_POSITIVE 389 119 75 120 84 NC_002950:PG1497|3end_DNA-binding_protein,_histone-like_family_1574635..1574785_POSITIVE 384 120 71 63 16 NC_002950:PG0803|3end_glucosamine-6-phosphate_deaminase_859727..859877_NEGATIVE 366 120 75 114 73 NC_002950:PG0935|3end_4-diphosphocytidyl-2C-methyl-D-erythritol_kinase_994297..994447_NEGATIVE 361 120 80 99 57 NC_002950:PG0723|3end_hypothetical_protein_775355..775505_POSITIVE 357 120 71 105 30 NC_002950:PG1392|3end_rod_shape-determining_protein_RodA,_putative_1472959..1473109_NEGATIVE 349 118 71 146 96 NC_002950:PG1270|3end_hypothetical_protein_1349278..1349428_NEGATIVE 349 122 81 91 47 NC_002950:PG0224|3end_hypothetical_protein_257614..257764_NEGATIVE 348 121 85 85 34 NC_002950:PG1875|3end_hemolysin_1969647..1969797_NEGATIVE 344 129 83 38 3 NC_002950:PG0735|3end_aminotransferase,_class_V_785677..785827_POSITIVE 343 122 81 69 10 NC_002950:PG0507|3end_hypothetical_protein_548190..548340_POSITIVE 342 120 75 148 98 NC_002950:PG1022|3end_hypothetical_protein_1085098..1085248_POSITIVE 341 118 71 72 15 NC_002950:PG1959|3end_ribosomal_protein_L33_2048217..2048367_NEGATIVE 341 120 72 62 16 NC_002950:PG1037|3end_hypothetical_protein_1102824..1102974_POSITIVE 337 106 70 144 106 NC_002950:PG0270|3end_redox-sensitive_transcriptional_activator_OxyR_303871..304021_POSITIVE 335 120 75 130 76 NC_002950:PG1794|3end_DNA_polymerase_type_I_1888838..1888988_POSITIVE 335 120 76 137 81 NC_002950:PG0222|3end_DNA-binding_protein,_histone-like_family_255913..256063_NEGATIVE 333 120 74 113 52 NC_002950:PG0604|3end_4-hydroxy-3-methylbut-2-enyl_diphosphate_reductase_661211..661361_POSITIVE