Origin IGS: ttagcaataaggaaacaacaaaaaacatcttcgttttggacaaatcgcgcacaaaaaaagcgtaaaacactaataaagaagatattacgagtacaagtgctaaaaagctcttttcggatgtctt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aagacatccgaaaagagctttttagcacttgtactcgtaatatcttctttattagtgttttacgctttttttgtgcgcgatttgtccaaaacgaagatgttttttgttgtttccttattgctaa Mask Tandem Repeat Region ================================================ ttagcaataaggaaacaacaaaaaacatcttcgttttggacaaatcgcgcacaaaaaaagcgtaaaacactaataaagaagatattacgagtacaagtgctaaaaagctcttttcggatgtctt Find is-nt database================================================ Query_seq: PG2103:PG2104|PG2103:PG2104:hypothetical protein:hypothetical protein:<-<-:2213451..2213574 124 ttagcaataaggaaacaacaaaaaacatcttcgttttggacaaatcgcgcacaaaaaaagcgtaaaacactaataaagaagatattacgagtacaagtgctaaaaagctcttttcggatgtctt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG2103:PG2104|PG2103:PG2104:hypothetical protein:hypothetical protein:<-<-:2213451..2213574 124 ttagcaataaggaaacaacaaaaaacatcttcgttttggacaaatcgcgcacaaaaaaagcgtaaaacactaataaagaagatattacgagtacaagtgctaaaaagctcttttcggatgtctt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG2103:PG2104|PG2103:PG2104:hypothetical protein:hypothetical protein:<-<-:2213451..2213574 124 ttagcaataaggaaacaacaaaaaacatcttcgttttggacaaatcgcgcacaaaaaaagcgtaaaacactaataaagaagatattacgagtacaagtgctaaaaagctcttttcggatgtctt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttagcaataaggaaacaacaaaaaacatcttcgttttggacaaatcgcgcacaaaaaaagcgtaaaacactaataaagaagatattacgagtacaagtgctaaaaagctcttttcggatgtctt Predict ORF larger than 30AA ================================================ Protein_Len: 39 Strand: + Start: 7 End: 123 ...... M R K Q Q K T S S F W T N R A Q K K R K T L I K K I L R V Q V L K S S F R M S . Protein_Len: 39 Strand: - Start: 3 End: 119 .. A I L F C C F V D E N Q V F R A C F F R L V S I F F I N R T C T S F L E K R M ..... ttagcaataaggaaacaacaaaaaacatcttcgttttggacaaatcgcgcacaaaaaaagcgtaaaacactaataaagaagatattacgagtacaagtgctaaaaagctcttttcggatgtctt 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================================================ ttagcaataaggaaacaacaaaaaacatcttcgttttggacaaatcgcgcacaaaaaaagcgtaaaacactaataaagaagatattacgagtacaagtgctaaaaagctcttttcggatgtctt Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 77 HP_score: -3.2 Tail_Score: -5.60993 Start: 60 End: 70 Full_Region: atatcttctttatta gtgt ttt acgc tttttttgtgcgcga ...........................................................gtgttttacgc...................................................... Find igs database================================================ Query_seq: PG2103:PG2104|PG2103:PG2104:hypothetical protein:hypothetical protein:<-<-:2213451..2213574 124 ttagcaataaggaaacaacaaaaaacatcttcgttttggacaaatcgcgcacaaaaaaagcgtaaaacactaataaagaagatattacgagtacaagtgctaaaaagctcttttcggatgtctt Intra-Species Hit: Count: 1 Min: 1 Max: 124 Len: 124 Subject: NC_002950_PG2103_PG2104|hypothetical protein:hypothetical protein|NEGATIVE:NEGATIVE|[2213451,2213574]|124 HSP 1 e-value: 5.0E-52 bit: 204.0 Len: 124 Query Start:1 Query End:124 Subject Strand: POSITIVE Subject Start: 1 Subject End: 124 ttagcaataaggaaacaacaaaaaacatcttcgttttggacaaatcgcgcacnnnnnnngcgtaaaacactaataaagaagatattacgagtacaagtgctaaaaagctcttttcggatgtctt ttagcaataaggaaacaacaaaaaacatcttcgttttggacaaatcgcgcacaaaaaaagcgtaaaacactaataaagaagatattacgagtacaagtgctaaaaagctcttttcggatgtctt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUAGCAAUAAGGAAACAACAAAAAACAUCUUCGUUUUGGACAAAUCGCGCACAAAAAAAGCGUAAAACACUAAUAAAGAAGAUAUUACGAGUACAAGUGCUAAAAAGCUCUUUUCGGAUGUCUU ((((......(....).....(((((......))))).........((((.........))))......)))).....((((((((.((((...(((.(((....))).))))))))))))))) (-20.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAGACAUCCGAAAAGAGCUUUUUAGCACUUGUACUCGUAAUAUCUUCUUUAUUAGUGUUUUACGCUUUUUUUGUGCGCGAUUUGUCCAAAACGAAGAUGUUUUUUGUUGUUUCCUUAUUGCUAA ........((((((((((.....((((((.(((................))).))))))....))))))))))...(((((..(.....((((((((...)))))))).....)..)))))... (-23.19) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 811 50 1 141 92 NC_002950:PG2103|5end_hypothetical_protein_2213360..2213590_NEGATIVE 276 50 8 218 171 NC_002950:PG1055|5end_thiol_protease_1122647..1122877_NEGATIVE 246 120 78 72 29 NC_002950:PG0114|5end_hypothetical_protein_136779..137009_POSITIVE 244 50 2 200 156 NC_002950:PG1944|5end_3-phosphoshikimate_1-carboxyvinyltransferase_2030416..2030646_POSITIVE 239 79 31 54 4 NC_002950:PG1060|5end_carboxyl-terminal_protease_1126658..1126888_POSITIVE 235 71 33 223 192 NC_002950:PG0858|5end_hypothetical_protein_917540..917770_POSITIVE 226 67 30 45 5 NC_002950:PG0571|5end_aspartate-semialdehyde_dehydrogenase_626399..626629_POSITIVE 223 118 87 177 140 NC_002950:PG1559|5end_aminomethyltransferase_1638992..1639222_NEGATIVE 223 117 74 70 26 NC_002950:PG0453|5end_hypothetical_protein_495316..495546_POSITIVE 218 69 28 35 3 NC_002950:PG0985|5end_RNA_polymerase_sigma-70_factor,_ECF_subfamily_1046930..1047160_POSITIVE 215 70 29 230 187 NC_002950:PG0375|5end_50S_ribosomal_protein_L13_405934..406164_POSITIVE 214 64 29 151 100 NC_002950:PG0182|5end_von_Willebrand_factor_type_A_domain_protein_205552..205782_POSITIVE 214 66 28 145 85 NC_002950:PG0028|5end_2C-methyl-D-erythritol_2,4-cyclodiphosphate_synthase_33863..34093_POSITIVE 211 51 31 63 37 NC_002950:PG2062|5end_histidyl-tRNA_synthetase_2158971..2159201_POSITIVE 211 69 26 187 158 NC_002950:PG0002|5end_hexapeptide_transferase_family_protein_1295..1525_POSITIVE 209 67 26 208 164 NC_002950:PG1022|5end_hypothetical_protein_1083537..1083767_POSITIVE 207 69 32 69 32 NC_002950:PG1044|5end_iron_dependent_repressor,_putative_1113818..1114048_NEGATIVE 207 116 87 158 130 NC_002950:PG0504|5end_lipoyl_synthase_544234..544464_POSITIVE 207 52 24 223 183 NC_002950:PG0064|5end_heavy_metal_efflux_pump,_CzcA_family_80193..80423_NEGATIVE 207 53 28 214 191 NC_002950:PG0021|5end_TIM-barrel_protein,_putative,_NifR3_family_25123..25353_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 250 63 25 51 10 NC_002950:PG0076|3end_N-acetylmuramoyl-L-alanine_amidase,_family_4_90392..90542_NEGATIVE 246 120 78 75 32 NC_002950:PG0113|3end_hypothetical_protein_136862..137012_POSITIVE 232 50 27 131 106 NC_002950:PG0124|3end_hypothetical_protein_145614..145764_NEGATIVE 223 118 87 102 65 NC_002950:PG1560|3end_dTDP-glucose_4,6-dehydratase_1639067..1639217_NEGATIVE 223 56 21 145 106 NC_002950:PG0422|3end_hypothetical_protein_461931..462081_NEGATIVE 214 66 28 138 78 NC_002950:PG0027|3end_hypothetical_protein_33936..34086_POSITIVE 213 120 84 140 104 NC_002950:PG0558|3end_purine_nucleoside_phosphorylase_615510..615660_NEGATIVE 209 67 26 49 5 NC_002950:PG1020|3end_hypothetical_protein_1083458..1083608_POSITIVE 207 116 87 55 27 NC_002950:PG0503|3end_dipeptidyl_aminopeptidase_IV_544211..544361_POSITIVE 205 50 11 150 115 NC_002950:PG1980|3end_hypothetical_protein_2067760..2067910_NEGATIVE 204 50 26 35 14 NC_002950:PG1172|3end_iron-sulfur_cluster_binding_protein,_putative_1252539..1252689_POSITIVE 204 90 43 48 7 NC_002950:PG0954|3end_TPR_domain_protein_1015005..1015155_POSITIVE 203 118 85 78 45 NC_002950:PG1254|3end_acetyltransferase,_GNAT_family_1331594..1331744_NEGATIVE 199 63 29 55 16 NC_002950:PG1753|3end_selenide,_water_dikinase_1839741..1839891_POSITIVE 195 117 95 32 3 NC_002950:PG0276|3end_hypothetical_protein_307602..307752_NEGATIVE 193 118 80 78 41 NC_002950:PG1588|3end_hypothetical_protein_1665765..1665915_NEGATIVE 192 52 30 150 127 NC_002950:PG0775|3end_acyl-CoA_dehydrogenase_family_protein_827432..827582_NEGATIVE 190 120 76 82 40 NC_002950:PG1497|3end_DNA-binding_protein,_histone-like_family_1574635..1574785_POSITIVE 190 71 33 52 1 NC_002950:PG0542|3end_hypothetical_protein_595377..595527_NEGATIVE 189 70 28 72 20 NC_002950:PG1389|3end_DNA-binding_protein,_histone-like_family_1470870..1471020_NEGATIVE