Origin IGS: taatccggagagttgatcctcttggtgaagcgtaaattattcaaaaacggcagcccttttcagtatcgaaaacggctgccgtttttgcgtaaaaaataaaaataagttacctaagggaacggagttagatta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taatctaactccgttcccttaggtaacttatttttattttttacgcaaaaacggcagccgttttcgatactgaaaagggctgccgtttttgaataatttacgcttcaccaagaggatcaactctccggatta Mask Tandem Repeat Region ================================================ taatccggagagttgatcctcttggtgaagcgtaaattattcaaaaacggcagcccttttcagtatcgaaaacggctgccgtttttgcgtaaaaaataaaaataagttacctaagggaacggagttagatta Find is-nt database================================================ Query_seq: TF1458:TF1459|TF1458:TF1459:conserved hypothetical protein:possible protease:->->:1548442..1548573 132 taatccggagagttgatcctcttggtgaagcgtaaattattcaaaaacggcagcccttttcagtatcgaaaacggctgccgtttttgcgtaaaaaataaaaataagttacctaagggaacggagttagatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1458:TF1459|TF1458:TF1459:conserved hypothetical protein:possible protease:->->:1548442..1548573 132 taatccggagagttgatcctcttggtgaagcgtaaattattcaaaaacggcagcccttttcagtatcgaaaacggctgccgtttttgcgtaaaaaataaaaataagttacctaagggaacggagttagatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1458:TF1459|TF1458:TF1459:conserved hypothetical protein:possible protease:->->:1548442..1548573 132 taatccggagagttgatcctcttggtgaagcgtaaattattcaaaaacggcagcccttttcagtatcgaaaacggctgccgtttttgcgtaaaaaataaaaataagttacctaagggaacggagttagatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taatccggagagttgatcctcttggtgaagcgtaaattattcaaaaacggcagcccttttcagtatcgaaaacggctgccgtttttgcgtaaaaaataaaaataagttacctaagggaacggagttagatta Predict ORF larger than 30AA ================================================ taatccggagagttgatcctcttggtgaagcgtaaattattcaaaaacggcagcccttttcagtatcgaaaacggctgccgtttttgcgtaaaaaataaaaataagttacctaagggaacggagttagatta 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================================================ taatccggagagttgatcctcttggtgaagcgtaaattattcaaaaacggcagcccttttcagtatcgaaaacggctgccgtttttgcgtaaaaaataaaaataagttacctaagggaacggagttagatta Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 100 HP_score: -16.1 Tail_Score: -4.72386 Start: 48 End: 81 Full_Region: ttttttacgcaaaaa cggcagccgttttcg atac tgaaaagggctgccg tttttgaataattta ...............................................cggcagccgttttcgatactgaaaagggctgccg................................................... Find igs database================================================ Query_seq: TF1458:TF1459|TF1458:TF1459:conserved hypothetical protein:possible protease:->->:1548442..1548573 132 taatccggagagttgatcctcttggtgaagcgtaaattattcaaaaacggcagcccttttcagtatcgaaaacggctgccgtttttgcgtaaaaaataaaaataagttacctaagggaacggagttagatta Intra-Species Hit: Count: 1 Min: 1 Max: 132 Len: 132 Subject: tfor_TF1458_TF1459|conserved hypothetical protein:possible protease|POSITIVE:POSITIVE|[1548442,1548573]|132 HSP 1 e-value: 8.0E-48 bit: 190.0 Len: 132 Query Start:1 Query End:132 Subject Strand: POSITIVE Subject Start: 1 Subject End: 132 taatccggagagttgatcctcttggtgaagcgtaaattattcaaaaacggcagcccttttcagtatcgaaaacggctgccgtttttgcgtnnnnnnnnnnnntaagttacctaagggaacggagttagatta taatccggagagttgatcctcttggtgaagcgtaaattattcaaaaacggcagcccttttcagtatcgaaaacggctgccgtttttgcgtaaaaaataaaaataagttacctaagggaacggagttagatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUCCGGAGAGUUGAUCCUCUUGGUGAAGCGUAAAUUAUUCAAAAACGGCAGCCCUUUUCAGUAUCGAAAACGGCUGCCGUUUUUGCGUAAAAAAUAAAAAUAAGUUACCUAAGGGAACGGAGUUAGAUUA (((((..(....(((.(((.((((((((........((((.((((((((((((((.(((((......))))).)))))))))))))).))))..............))))).)))))).)))..)..))))) (-42.85) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUCUAACUCCGUUCCCUUAGGUAACUUAUUUUUAUUUUUUACGCAAAAACGGCAGCCGUUUUCGAUACUGAAAAGGGCUGCCGUUUUUGAAUAAUUUACGCUUCACCAAGAGGAUCAACUCUCCGGAUUA .........((((.........((((.(((((.............((((((((((((((.((((((....)))))).))))))))))))))))))).)))).........((((......)))).))))... (-41.21) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 461 87 42 223 178 tfor:TF3081|5end_ISPg7,_transposase_3314517..3314747_POSITIVE 382 90 48 74 30 tfor:TF2837|5end_conserved_hypothetical_protein_3027939..3028169_POSITIVE 366 89 49 216 172 tfor:TF1070|5end_hydrolase_1139704..1139934_POSITIVE 360 81 48 196 156 tfor:TF2781|5end_hypothetical_protein_2965822..2966052_POSITIVE 336 83 48 56 16 tfor:TF1775|5end_oxidoreductase,_Gfo/Idh/MocA_family_1913135..1913365_POSITIVE 332 87 49 159 120 tfor:TF2217|5end_hypothetical_protein_2389891..2390121_POSITIVE 331 89 48 37 8 tfor:TF2876|5end_cytosine_deaminase_3065144..3065374_POSITIVE 324 88 49 212 163 tfor:TF1929|5end_conserved_hypothetical_protein_2076049..2076279_POSITIVE 323 82 48 183 141 tfor:TF2678|5end_GTP_cyclohydrolase_II_/3,4-dihydroxy-2-butanone-4-phoshate_synthase_2852036..2852266_POSITIVE 322 88 48 53 2 tfor:TF2152|5end_uronate_isomerase_2326575..2326805_POSITIVE 320 89 48 74 19 tfor:TF2344|5end_ATP/GTP_binding_protein_2507422..2507652_POSITIVE 319 90 44 219 164 tfor:TF1465|5end_modulator_of_DNA_gyrase_1554148..1554378_POSITIVE 315 89 46 71 18 tfor:TF0819|5end_phosphoglycerate_mutase_878447..878677_POSITIVE 311 90 41 66 22 tfor:TF0424|5end_outer_membrane_receptor,_TonB-linked_440028..440258_POSITIVE 311 90 41 78 18 tfor:TF0001|5end_hypothetical_protein_-116..114_POSITIVE 308 89 47 65 19 tfor:TF0465|5end_cobalamin_biosynthesis_protein_482028..482258_POSITIVE 307 90 48 189 147 tfor:TF2434|5end_conserved_hypothetical_protein_2613969..2614199_POSITIVE 307 88 48 187 149 tfor:TF2261|5end_transfer_region-related_protein,_TraM_2430496..2430726_POSITIVE 305 88 47 189 139 tfor:TF2037|5end_conserved_hypothetical_protein;_possible_anaerobic_ribonucleoside-triphosphate_reductase_2196754..2196984_POSITIVE 304 70 21 71 17 tfor:TF3125|5end_recombination/repair_protein_3359808..3360038_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 520 87 42 49 4 tfor:TF1458|3end_conserved_hypothetical_protein_1548381..1548531_POSITIVE 461 87 42 49 4 tfor:TF3080|3end_conserved_hypothetical_protein_3314423..3314573_POSITIVE 448 89 41 127 78 tfor:TF0350|3end_hypothetical_protein_371101..371251_POSITIVE 382 90 48 83 39 tfor:TF2836|3end_methyltransferase_3028028..3028178_POSITIVE 332 87 49 132 93 tfor:TF2216|3end_fumarate_hydratase,_class_I_2389944..2390094_POSITIVE 331 89 48 37 8 tfor:TF2874|3end_conserved_hypothetical_protein_3065224..3065374_POSITIVE 323 82 48 146 104 tfor:TF2677|3end_aspartate_transaminase_2852079..2852229_POSITIVE 322 88 48 53 2 tfor:TF2150|3end_Na+/phosphate_symporter_2326655..2326805_POSITIVE 320 89 48 74 19 tfor:TF2343|3end_ribosome_recycling_factor_2507502..2507652_POSITIVE 319 90 44 107 52 tfor:TF1464|3end_conserved_hypothetical_protein_1554116..1554266_POSITIVE 319 89 48 126 82 tfor:TF0624|3end_Xaa-Pro_dipeptidase_(aminopeptidase_P)_661015..661165_POSITIVE 315 89 46 61 8 tfor:TF0818|3end_bifunctional_protein:__aspartokinase_I;_homoserine_dehydrogenase_878517..878667_POSITIVE 308 89 47 65 19 tfor:TF0464|3end_precorrin_methylase_482108..482258_POSITIVE 304 70 21 66 12 tfor:TF3124|3end_dTDP-glucose_4,6-dehydratase_3359883..3360033_POSITIVE 304 90 43 42 3 tfor:TF0802|3end_glucose-1-phosphate_cytidylyltransferase_861082..861232_POSITIVE 303 79 36 130 87 tfor:TF2852|3end_conserved_hypothetical_protein_3040221..3040371_POSITIVE 300 89 48 117 73 tfor:TF0448|3end_hypothetical_protein_467911..468061_POSITIVE 290 90 48 69 20 tfor:TF1734|3end_conserved_hypothetical_protein_1860118..1860268_POSITIVE 286 90 48 83 27 tfor:TF1431|3end_conserved_hypothetical_protein;_possible_acyltransferase_1516008..1516158_POSITIVE 285 81 48 145 110 tfor:TF0088|3end_ABC_transporter,_permease_component_95494..95644_POSITIVE