Origin IGS: atctgtgaataattaaaaattcgccacgcaaatataaaaactaactttcggatagaatcaaaaatagttttaaaacataaaaatatcattgcgctttatttggaaatcagcaataaaaacagctatatttgcattgtggagatgtcaatgacttatcataattcaacaaatat .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 atatttgttgaattatgataagtcattgacatctccacaatgcaaatatagctgtttttattgctgatttccaaataaagcgcaatgatatttttatgttttaaaactatttttgattctatccgaaagttagtttttatatttgcgtggcgaatttttaattattcacagat Mask Tandem Repeat Region ================================================ atctgtgaataattaaaaattcgccacgcaaatataaaaactaactttcggatagaatcaaaaatagttttaaaacataaaaatatcattgcgctttatttggaaatcagcaataaaaacagctatatttgcattgtggagatgtcaatgacttatcataattcaacaaatat Find is-nt database================================================ Query_seq: TF0643:TF0644|TF0643:TF0644:probable tRNA methyltransferase:pyruvate phosphate dikinase:->->:685751..685923 173 atctgtgaataattaaaaattcgccacgcaaatataaaaactaactttcggatagaatcaaaaatagttttaaaacataaaaatatcattgcgctttatttggaaatcagcaataaaaacagctatatttgcattgtggagatgtcaatgacttatcataattcaacaaatat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0643:TF0644|TF0643:TF0644:probable tRNA methyltransferase:pyruvate phosphate dikinase:->->:685751..685923 173 atctgtgaataattaaaaattcgccacgcaaatataaaaactaactttcggatagaatcaaaaatagttttaaaacataaaaatatcattgcgctttatttggaaatcagcaataaaaacagctatatttgcattgtggagatgtcaatgacttatcataattcaacaaatat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0643:TF0644|TF0643:TF0644:probable tRNA methyltransferase:pyruvate phosphate dikinase:->->:685751..685923 173 atctgtgaataattaaaaattcgccacgcaaatataaaaactaactttcggatagaatcaaaaatagttttaaaacataaaaatatcattgcgctttatttggaaatcagcaataaaaacagctatatttgcattgtggagatgtcaatgacttatcataattcaacaaatat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 atctgtgaataattaaaaattcgccacgcaaatataaaaactaactttcggatagaatcaaaaatagttttaaaacataaaaatatcattgcgctttatttggaaatcagcaataaaaacagctatatttgcattgtggagatgtcaatgacttatcataattcaacaaatat Predict ORF larger than 30AA ================================================ Protein_Len: 51 Strand: + Start: 19 End: 171 .................. M R H A N I K T N F R I E S K I V L K H K N I I A L Y L E I S N K N S Y I C I V E M S M T Y H N S T N .. atctgtgaataattaaaaattcgccacgcaaatataaaaactaactttcggatagaatcaaaaatagttttaaaacataaaaatatcattgcgctttatttggaaatcagcaataaaaacagctatatttgcattgtggagatgtcaatgacttatcataattcaacaaatat 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================================================ atctgtgaataattaaaaattcgccacgcaaatataaaaactaactttcggatagaatcaaaaatagttttaaaacataaaaatatcattgcgctttatttggaaatcagcaataaaaacagctatatttgcattgtggagatgtcaatgacttatcataattcaacaaatat Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF0643:TF0644|TF0643:TF0644:probable tRNA methyltransferase:pyruvate phosphate dikinase:->->:685751..685923 173 atctgtgaataattaaaaattcgccacgcaaatataaaaactaactttcggatagaatcaaaaatagttttaaaacataaaaatatcattgcgctttatttggaaatcagcaataaaaacagctatatttgcattgtggagatgtcaatgacttatcataattcaacaaatat Intra-Species Hit: Count: 1 Min: 1 Max: 173 Len: 173 Subject: tfor_TF0643_TF0644|probable tRNA methyltransferase:pyruvate phosphate dikinase|POSITIVE:POSITIVE|[685751,685923]|173 HSP 1 e-value: 1.0E-93 bit: 343.0 Len: 173 Query Start:1 Query End:173 Subject Strand: POSITIVE Subject Start: 1 Subject End: 173 atctgtgaataattaaaaattcgccacgcaaatataaaaactaactttcggatagaatcaaaaatagttttaaaacataaaaatatcattgcgctttatttggaaatcagcaataaaaacagctatatttgcattgtggagatgtcaatgacttatcataattcaacaaatat atctgtgaataattaaaaattcgccacgcaaatataaaaactaactttcggatagaatcaaaaatagttttaaaacataaaaatatcattgcgctttatttggaaatcagcaataaaaacagctatatttgcattgtggagatgtcaatgacttatcataattcaacaaatat Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUCUGUGAAUAAUUAAAAAUUCGCCACGCAAAUAUAAAAACUAACUUUCGGAUAGAAUCAAAAAUAGUUUUAAAACAUAAAAAUAUCAUUGCGCUUUAUUUGGAAAUCAGCAAUAAAAACAGCUAUAUUUGCAUUGUGGAGAUGUCAAUGACUUAUCAUAAUUCAACAAAUAU ...(((((((..........((.((((((((((((..........(((((((((((..(((..(((.(((((.....))))).)))..)))...)))))))))))...(((..........)))))))))))...)))).)).....((((....)))).)))).)))..... (-26.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUAUUUGUUGAAUUAUGAUAAGUCAUUGACAUCUCCACAAUGCAAAUAUAGCUGUUUUUAUUGCUGAUUUCCAAAUAAAGCGCAAUGAUAUUUUUAUGUUUUAAAACUAUUUUUGAUUCUAUCCGAAAGUUAGUUUUUAUAUUUGCGUGGCGAAUUUUUAAUUAUUCACAGAU ..((((((.((((.((.....(((...))).((.((((...(((((((((.......(((((((...(((......)))..)))))))..............(((((((((((((........)))))).)))))))))))))))))))).)).......)).)))))))))) (-31.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 247 161 122 156 124 tfor:TF0342|5end_hypothetical_protein_366189..366419_POSITIVE 233 57 21 130 99 tfor:TF1745|5end_hypothetical_protein_1879154..1879384_POSITIVE 231 166 127 82 44 tfor:TF0487|5end_xylulose_kinase_508601..508831_POSITIVE 225 169 121 101 43 tfor:TF2763|5end_pyridine_nucleotide-disulphide_oxidoreductase_family_protein_2946073..2946303_POSITIVE 222 145 101 157 116 tfor:TF1142|5end_outer_membrane_cobalamin_receptor_protein_1219207..1219437_POSITIVE 215 150 102 176 121 tfor:TF1973|5end_propionyl-CoA_carboxylase,_beta_subunit_2119360..2119590_POSITIVE 214 140 97 217 168 tfor:TF0854|5end_3-oxoacyl-[acyl-carrier-protein]_synthase_III_904716..904946_POSITIVE 214 128 85 73 22 tfor:TF0127|5end_conserved_hypothetical_protein_138026..138256_POSITIVE 212 167 129 110 76 tfor:TF2220|5end_CTn_integrase-recombinase_protein_2392424..2392654_POSITIVE 209 168 131 77 38 tfor:TF2814|5end_prolipoprotein_diacylglyceryl_transferase_3004493..3004723_POSITIVE 208 70 21 82 43 tfor:TF2592|5end_conserved_hypothetical_protein_2759080..2759310_POSITIVE 208 150 117 199 169 tfor:TF1820|5end_cation_efflux_protein,_AcrB/AcrD/AcrF_family_1963363..1963593_POSITIVE 207 139 91 210 166 tfor:TF2384|5end_thiol:disulfide_interchange_protein_2548601..2548831_POSITIVE 203 67 21 197 151 tfor:TF1126|5end_conserved_hypothetical_protein;_possible_lipoprotein_1199978..1200208_POSITIVE 202 148 101 63 19 tfor:TF1121|5end_ABC_transporter_ATP-binding/permease_component,_bacteriocin/lantibiotic_exporter_1195183..1195413_POSITIVE 199 51 19 199 171 tfor:TF2259|5end_transfer_region-related_protein,_TraK_2429577..2429807_POSITIVE 199 157 121 56 12 tfor:TF1902|5end_two-component_system_sensor_histidine_kinase_2057521..2057751_POSITIVE 199 152 115 151 115 tfor:TF1574|5end_two-component_system_response_regulator_1681807..1682037_POSITIVE 199 139 91 143 77 tfor:TF1538|5end_conserved_hypothetical_protein_1643531..1643761_POSITIVE 198 158 120 172 138 tfor:TF2526|5end_outer_membrane_protein,_TonB_dependent_receptor_2705547..2705777_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 233 57 21 114 83 tfor:TF1744|3end_phenylacetate-CoA_ligase_1879218..1879368_POSITIVE 232 150 107 88 51 tfor:TF2173|3end_hypothetical_protein_2346063..2346213_POSITIVE 232 150 107 88 51 tfor:TF0346|3end_hypothetical_protein_367316..367466_POSITIVE 225 169 121 82 24 tfor:TF2762|3end_conserved_hypothetical_protein_2946134..2946284_POSITIVE 222 145 101 133 92 tfor:TF1141|3end_conserved_hypothetical_protein_1219263..1219413_POSITIVE 218 157 111 66 15 tfor:TF2790|3end_prismane_protein,_hybrid-cluster_protein_2975150..2975300_POSITIVE 216 140 92 68 26 tfor:TF2583|3end_possible_ABC_transporter,__permease_component_2751026..2751176_POSITIVE 215 150 102 151 96 tfor:TF1972|3end_conserved_hypothetical_protein_2119415..2119565_POSITIVE 214 123 81 147 101 tfor:TF1174|3end_ABC_transporter,_permease_component_1257896..1258046_POSITIVE 214 128 85 73 22 tfor:TF0126|3end_hypothetical_protein_138106..138256_POSITIVE 210 150 120 151 114 tfor:TF1289|3end_ribosomal_protein_L11_methyltransferase_1371233..1371383_POSITIVE 209 168 131 44 5 tfor:TF2813|3end_possible_flavoprotein_A_3004540..3004690_POSITIVE 207 139 91 94 50 tfor:TF2383|3end_hypothetical_protein_2548565..2548715_POSITIVE 205 153 122 148 124 tfor:TF0341|3end_conserved_hypothetical_protein_366269..366419_POSITIVE 204 168 122 51 11 tfor:TF0908|3end_integrase_fragment_951024..951174_POSITIVE 202 148 101 56 12 tfor:TF1120|3end_conserved_hypothetical_protein_1195256..1195406_POSITIVE 199 157 121 82 38 tfor:TF1903|3end_hypothetical_protein_2057627..2057777_POSITIVE 199 147 110 151 109 tfor:TF1280|3end_electron_transfer_flavoprotein,_beta_subunit_1365257..1365407_POSITIVE 198 164 122 148 101 tfor:TF1789|3end_conserved_hypothetical_protein_1931204..1931354_POSITIVE 196 119 89 79 39 tfor:TF0986|3end_50S_ribosomal_protein_L31_1041757..1041907_POSITIVE