Origin IGS: tttcttttatttttaaagttagaacaatgcaaaagtaagcaattcttccgattaaaaaaaatgtttgtctttttttttattctttcctttgctgcaataacttttttcttcttccgttattcatataaaataaaagcaaa .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tttgcttttattttatatgaataacggaagaagaaaaaagttattgcagcaaaggaaagaataaaaaaaaagacaaacattttttttaatcggaagaattgcttacttttgcattgttctaactttaaaaataaaagaaa Mask Tandem Repeat Region ================================================ tttcttttatttttaaagttagaacaatgcaaaagtaagcaattcttccgattaaaaaaaatgtttgtctttttttttattctttcctttgctgcaataacttttttcttcttccgttattcatataaaataaaagcaaa Find is-nt database================================================ Query_seq: TF0187:TF0188|TF0187:TF0188:ferredoxin:membrane-associated porT protein:->->:202459..202598 140 tttcttttatttttaaagttagaacaatgcaaaagtaagcaattcttccgattaaaaaaaatgtttgtctttttttttattctttcctttgctgcaataacttttttcttcttccgttattcatataaaataaaagcaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0187:TF0188|TF0187:TF0188:ferredoxin:membrane-associated porT protein:->->:202459..202598 140 tttcttttatttttaaagttagaacaatgcaaaagtaagcaattcttccgattaaaaaaaatgtttgtctttttttttattctttcctttgctgcaataacttttttcttcttccgttattcatataaaataaaagcaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0187:TF0188|TF0187:TF0188:ferredoxin:membrane-associated porT protein:->->:202459..202598 140 tttcttttatttttaaagttagaacaatgcaaaagtaagcaattcttccgattaaaaaaaatgtttgtctttttttttattctttcctttgctgcaataacttttttcttcttccgttattcatataaaataaaagcaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tttcttttatttttaaagttagaacaatgcaaaagtaagcaattcttccgattaaaaaaaatgtttgtctttttttttattctttcctttgctgcaataacttttttcttcttccgttattcatataaaataaaagcaaa Predict ORF larger than 30AA ================================================ Protein_Len: 32 Strand: - Start: 3 End: 98 .. R K N K F N S C H L L L C N K R N F F I N T K K K I R E K A A M .......................................... tttcttttatttttaaagttagaacaatgcaaaagtaagcaattcttccgattaaaaaaaatgtttgtctttttttttattctttcctttgctgcaataacttttttcttcttccgttattcatataaaataaaagcaaa 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================================================ tttcttttatttttaaagttagaacaatgcaaaagtaagcaattcttccgattaaaaaaaatgtttgtctttttttttattctttcctttgctgcaataacttttttcttcttccgttattcatataaaataaaagcaaa Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 56 HP_score: -3.9 Tail_Score: -4.17002 Start: 53 End: 79 Full_Region: AGCAATTCTTCCGAT TAAAAAAAATG TTTGT CTTTTTTTTTA TTCTTTCCTTTGCTG ....................................................TAAAAAAAATGTTTGTCTTTTTTTTTA............................................................. Find igs database================================================ Query_seq: TF0187:TF0188|TF0187:TF0188:ferredoxin:membrane-associated porT protein:->->:202459..202598 140 tttcttttatttttaaagttagaacaatgcaaaagtaagcaattcttccgattaaaaaaaatgtttgtctttttttttattctttcctttgctgcaataacttttttcttcttccgttattcatataaaataaaagcaaa Intra-Species Hit: Count: 1 Min: 1 Max: 140 Len: 140 Subject: tfor_TF0187_TF0188|ferredoxin:membrane-associated porT protein|POSITIVE:POSITIVE|[202459,202598]|140 HSP 1 e-value: 2.0E-27 bit: 123.0 Len: 62 Query Start:79 Query End:140 Subject Strand: POSITIVE Subject Start: 79 Subject End: 140 ..............................................................................attctttcctttgctgcaataacttttttcttcttccgttattcatataaaataaaagcaaa ..............................................................................attctttcctttgctgcaataacttttttcttcttccgttattcatataaaataaaagcaaa HSP 2 e-value: 4.0E-22 bit: 105.0 Len: 53 Query Start:1 Query End:53 Subject Strand: POSITIVE Subject Start: 1 Subject End: 53 tttcttttatttttaaagttagaacaatgcaaaagtaagcaattcttccgatt....................................................................................... tttcttttatttttaaagttagaacaatgcaaaagtaagcaattcttccgatt....................................................................................... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUCUUUUAUUUUUAAAGUUAGAACAAUGCAAAAGUAAGCAAUUCUUCCGAUUAAAAAAAAUGUUUGUCUUUUUUUUUAUUCUUUCCUUUGCUGCAAUAACUUUUUUCUUCUUCCGUUAUUCAUAUAAAAUAAAAGCAAA ...(((((((((((((.(..((((.((...((((((.(((((.......((.(((((((((.(.....).))))))))).))......)))))......)))))))).))))..).))).......)))))))))).... (-17.13) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUGCUUUUAUUUUAUAUGAAUAACGGAAGAAGAAAAAAGUUAUUGCAGCAAAGGAAAGAAUAAAAAAAAAGACAAACAUUUUUUUUAAUCGGAAGAAUUGCUUACUUUUGCAUUGUUCUAACUUUAAAAAUAAAAGAAA ....((((((((((..........(....)......(((((((..((((((((((.(((....((((((((........))))))))..((....))....))).)))))))..)))..))))))).))))))))))... (-30.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 274 118 79 154 114 tfor:TF2818|5end_acetylornithine_aminotransferase_3007739..3007969_POSITIVE 261 95 70 181 155 tfor:TF2636|5end_glutaminase_2806096..2806326_POSITIVE 256 107 66 144 99 tfor:TF0612|5end_conserved_hypothetical_protein_644066..644296_POSITIVE 255 117 96 226 205 tfor:TF1240|5end_conserved_hypothetical_protein_1324304..1324534_POSITIVE 250 120 90 210 184 tfor:TF2900|5end_conserved_hypothetical_protein_3088252..3088482_POSITIVE 248 50 28 77 57 tfor:TF2930|5end_glutamyl-tRNA_synthetase_3132686..3132916_POSITIVE 248 119 80 187 150 tfor:TF1225|5end_conserved_hypothetical_protein_1311593..1311823_POSITIVE 244 96 62 156 116 tfor:TF2504|5end_peptidyl-prolyl_cis-trans_isomerase_2680031..2680261_POSITIVE 236 118 80 92 51 tfor:TF2558|5end_50S_ribosomal_protein_L22_2737459..2737689_POSITIVE 235 117 79 102 60 tfor:TF1531|5end_potassium_uptake_protein_1636534..1636764_POSITIVE 233 114 77 229 194 tfor:TF0830|5end_hypothetical_protein_887610..887840_POSITIVE 232 50 9 123 80 tfor:TF0324|5end_conserved_hypothetical_protein_351228..351458_POSITIVE 225 113 81 125 97 tfor:TF3107|5end_hypothetical_protein_3338459..3338689_POSITIVE 224 118 80 75 28 tfor:TF1353|5end_conserved_hypothetical_protein;_possible_penicillinase_repressor_1432908..1433138_POSITIVE 223 127 81 211 162 tfor:TF1149|5end_conserved_hypothetical_protein;_possible_branched-chain_amino_acid_aminotransferase_1229218..1229448_POSITIVE 219 108 65 163 121 tfor:TF2915|5end_hypothetical_protein_3110422..3110652_POSITIVE 219 122 82 55 7 tfor:TF0207|5end_conserved_hypothetical_protein_233105..233335_POSITIVE 217 120 71 150 97 tfor:TF1144|5end_ABC_transporter,_ATP-binding/permease_component_1223527..1223757_POSITIVE 215 100 63 180 135 tfor:TF0108|5end_thiamine_biosynthesis_protein,_ThiF_family_115168..115398_POSITIVE 212 94 59 140 106 tfor:TF0713|5end_polypeptide_deformylase;_formylmethionine_deformylase;_763440..763670_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 261 95 70 106 80 tfor:TF2635|3end_ABC_transporter,_ATP-binding_protein/permease_component_2806101..2806251_POSITIVE 257 119 76 86 39 tfor:TF2889|3end_50S_ribosomal_protein_L27_3078688..3078838_POSITIVE 255 117 96 62 41 tfor:TF1239|3end_RNA_polymerase_ECF-type_sigma_factor_1324220..1324370_POSITIVE 236 118 80 66 25 tfor:TF2557|3end_30S_ribosomal_protein_S19_2737513..2737663_POSITIVE 235 117 79 102 60 tfor:TF1530|3end_1-deoxyxylulose-5-phosphate_synthase_1636614..1636764_POSITIVE 233 114 77 47 12 tfor:TF0828|3end_hypothetical_protein_887508..887658_POSITIVE 224 95 66 48 18 tfor:TF2840|3end_hypothetical_protein_3031289..3031439_POSITIVE 220 128 87 148 108 tfor:TF1862|3end_hypothetical_protein_2018784..2018934_POSITIVE 217 120 71 144 91 tfor:TF1143|3end_ABC_transporter,_ATP-binding/permease_component_1223601..1223751_POSITIVE 212 94 59 132 98 tfor:TF0712|3end_TPR-repeat-containing_protein_763512..763662_POSITIVE 211 100 59 151 103 tfor:TF3042|3end_ferrous_iron_transport_protein_B_3271949..3272099_POSITIVE 209 95 59 103 63 tfor:TF2384|3end_thiol:disulfide_interchange_protein_2550756..2550906_POSITIVE 207 68 21 122 65 tfor:TF0937|3end_ATPase,__AAA+_class_979420..979570_POSITIVE 204 116 82 120 91 tfor:TF2158|3end_conserved_hypothetical_protein_2334584..2334734_POSITIVE 204 116 82 82 47 tfor:TF1729|3end_aspartokinase_1854718..1854868_POSITIVE 202 116 80 140 100 tfor:TF2685|3end_iron-regulated_ABC-type_transporter_membrane_component_2862725..2862875_POSITIVE 202 119 71 118 48 tfor:TF0135|3end_hypothetical_protein_146554..146704_POSITIVE 202 116 73 99 56 tfor:TF0119|3end_gluconate_aldolase_131334..131484_POSITIVE 201 68 26 59 16 tfor:TF2008|3end_DNA_polymerase_I_2162183..2162333_POSITIVE 200 108 62 108 65 tfor:TF1703|3end_conserved_hypothetical_protein_1825669..1825819_POSITIVE