Origin IGS: ttgttcttatatttttatggattgataatttccataaagttatatgattttttataatccaaatgcacttcctctttttttgagaatattcgattgttttggatgctttggcaaagattgctaaaaacgggttactta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taagtaacccgtttttagcaatctttgccaaagcatccaaaacaatcgaatattctcaaaaaaagaggaagtgcatttggattataaaaaatcatataactttatggaaattatcaatccataaaaatataagaacaa Mask Tandem Repeat Region ================================================ ttgttcttatatttttatggattgataatttccataaagttatatgattttttataatccaaatgcacttcctctttttttgagaatattcgattgttttggatgctttggcaaagattgctaaaaacgggttactta Find is-nt database================================================ Query_seq: TF0739:TF0743|TF0739:TF0743:hypothetical protein:conserved hypothetical protein:->->:790329..790466 138 ttgttcttatatttttatggattgataatttccataaagttatatgattttttataatccaaatgcacttcctctttttttgagaatattcgattgttttggatgctttggcaaagattgctaaaaacgggttactta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0739:TF0743|TF0739:TF0743:hypothetical protein:conserved hypothetical protein:->->:790329..790466 138 ttgttcttatatttttatggattgataatttccataaagttatatgattttttataatccaaatgcacttcctctttttttgagaatattcgattgttttggatgctttggcaaagattgctaaaaacgggttactta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0739:TF0743|TF0739:TF0743:hypothetical protein:conserved hypothetical protein:->->:790329..790466 138 ttgttcttatatttttatggattgataatttccataaagttatatgattttttataatccaaatgcacttcctctttttttgagaatattcgattgttttggatgctttggcaaagattgctaaaaacgggttactta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttgttcttatatttttatggattgataatttccataaagttatatgattttttataatccaaatgcacttcctctttttttgagaatattcgattgttttggatgctttggcaaagattgctaaaaacgggttactta Predict ORF larger than 30AA ================================================ Protein_Len: 39 Strand: - Start: 2 End: 118 . T R I N K H I S L K W L T I H N K I I W I C K R K K Q S Y E I T K S A K A F M .................... ttgttcttatatttttatggattgataatttccataaagttatatgattttttataatccaaatgcacttcctctttttttgagaatattcgattgttttggatgctttggcaaagattgctaaaaacgggttactta Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ PromScan Matrix: RpoD-17 Strand: + Score: 81 Start: 29 End: 58 ............................TTTCCATAAAGTTATATGATTTTTTATAAT................................................................................ Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ ttgttcttatatttttatggattgataatttccataaagttatatgattttttataatccaaatgcacttcctctttttttgagaatattcgattgttttggatgctttggcaaagattgctaaaaacgggttactta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF0739:TF0743|TF0739:TF0743:hypothetical protein:conserved hypothetical protein:->->:790329..790466 138 ttgttcttatatttttatggattgataatttccataaagttatatgattttttataatccaaatgcacttcctctttttttgagaatattcgattgttttggatgctttggcaaagattgctaaaaacgggttactta Intra-Species Hit: Count: 2 Min: 1 Max: 138 Len: 138 Subject: tfor_TF0739_TF0743|hypothetical protein:conserved hypothetical protein|POSITIVE:POSITIVE|[790329,790466]|138 HSP 1 e-value: 2.0E-60 bit: 232.0 Len: 138 Query Start:1 Query End:138 Subject Strand: POSITIVE Subject Start: 1 Subject End: 138 ttgttcttatatttttatggattgataatttccataaagttatatgattttttataatccaaatgcacttcctcnnnnnnngagaatattcgattgttttggatgctttggcaaagattgctaaaaacgggttactta ttgttcttatatttttatggattgataatttccataaagttatatgattttttataatccaaatgcacttcctctttttttgagaatattcgattgttttggatgctttggcaaagattgctaaaaacgggttactta Subject: tfor_TF0737_TF0738|hypothetical protein:conserved hypothetical protein|POSITIVE:POSITIVE|[788637,788782]|146 HSP 1 e-value: 2.0E-39 bit: 163.0 Len: 111 Query Start:1 Query End:111 Subject Strand: POSITIVE Subject Start: 1 Subject End: 111 ttgttcttatatttttatggattgataatttccataaagttatatgattttttataatccaaatgcacttcctcnnnnnnngagaatattcgattgttttggatgctttgg........................... ttgttcttatatttttatggattggtaatttccacaaagttatatgattttttataatccaaatgcacttcctctttttttgagaatattcgattgttttggatgctttgg........................... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUGUUCUUAUAUUUUUAUGGAUUGAUAAUUUCCAUAAAGUUAUAUGAUUUUUUAUAAUCCAAAUGCACUUCCUCUUUUUUUGAGAAUAUUCGAUUGUUUUGGAUGCUUUGGCAAAGAUUGCUAAAAACGGGUUACUUA ....((.((((.(((((((((.........))))))))).)))).)).......((((((....(((..(((.......(((((....))))).......)))))).((((((.....))))))....)))))).... (-27.84) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAGUAACCCGUUUUUAGCAAUCUUUGCCAAAGCAUCCAAAACAAUCGAAUAUUCUCAAAAAAAGAGGAAGUGCAUUUGGAUUAUAAAAAAUCAUAUAACUUUAUGGAAAUUAUCAAUCCAUAAAAAUAUAAGAACAA ..........(((((((..........(((((((((......(....)....(((((.......))))).)))).)))))....................((((((((.........))))))))....))))))).. (-21.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 286 113 71 156 101 tfor:TF1009|5end_conserved_hypothetical_protein;_posible_rod-shape_determining_protein,_MreD_1064290..1064520_POSITIVE 279 117 71 69 21 tfor:TF1523|5end_hypothetical_protein_1630273..1630503_POSITIVE 279 130 81 161 113 tfor:TF0045|5end_outer_membrane_protein,_TonB_dependent_receptor_49626..49856_POSITIVE 269 114 72 74 26 tfor:TF1763|5end_K+-dependent_Na+/Ca+_exchanger_related-protein_1900406..1900636_POSITIVE 267 112 76 205 163 tfor:TF2379|5end_phosphoribosylformylglycinamidine_cyclo-ligase_(AIR_synthase)_2543849..2544079_POSITIVE 259 119 88 82 55 tfor:TF2320|5end_hypothetical_protein_2476654..2476884_POSITIVE 257 118 73 61 18 tfor:TF0776|5end_ABC_transporter,_permease_component_824855..825085_POSITIVE 255 122 81 54 15 tfor:TF1718|5end_conserved_hypothetical_protein_1840462..1840692_POSITIVE 254 130 88 180 124 tfor:TF1531|5end_potassium_uptake_protein_1636534..1636764_POSITIVE 254 120 87 222 189 tfor:TF0506|5end_ATP-dependent_RNA_helicase,_DEAD/DEAH_box_helicase_531031..531261_POSITIVE 251 106 63 156 108 tfor:TF2250|5end_transfer_region-related_protein,_TraD_2423380..2423610_POSITIVE 250 109 66 83 38 tfor:TF1327|5end_L-fucose_permease_1405790..1406020_POSITIVE 250 130 97 223 190 tfor:TF0684|5end_conserved_hypothetical_protein_728853..729083_POSITIVE 245 118 71 191 145 tfor:TF0661|5end_hypothetical_protein_707389..707619_POSITIVE 244 130 88 128 94 tfor:TF0765|5end_conserved_hypothetical_protein_811302..811532_POSITIVE 243 117 71 176 112 tfor:TF2045|5end_aminoacyl-histidine_dipeptidase_2206114..2206344_POSITIVE 240 106 65 217 177 tfor:TF2206|5end_conserved_hypothetical_protein;_possible_sugar_phosphate_isomerase/epimerase_2379969..2380199_POSITIVE 239 125 84 212 177 tfor:TF1315|5end_purine_nucleoside_phosphorylase_1390236..1390466_POSITIVE 237 120 80 114 74 tfor:TF1231|5end_NAD-dependent_DNA_ligase_1315235..1315465_POSITIVE 236 115 73 76 36 tfor:TF1326|5end_hypothetical_protein_1403844..1404074_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 279 130 81 140 92 tfor:TF0044|3end_conserved_hypothetical_protein_49685..49835_POSITIVE 267 112 76 147 105 tfor:TF2378|3end_peptide_chain_release_factor_1_2543871..2544021_POSITIVE 257 118 73 45 2 tfor:TF0775|3end_ABC_transporter,_permease_component_824919..825069_POSITIVE 251 106 63 114 66 tfor:TF2249|3end_transfer_region-related_protein,_TraC_2423418..2423568_POSITIVE 250 109 66 83 38 tfor:TF1325|3end_L-fucose_isomerase_1405870..1406020_POSITIVE 250 129 82 150 94 tfor:TF0431|3end_hypothetical_protein_452470..452620_POSITIVE 245 118 71 121 75 tfor:TF0660|3end_conserved_hypothetical_protein_707399..707549_POSITIVE 244 130 88 117 83 tfor:TF0764|3end_conserved_hypothetical_protein;_possible_exopolyphosphatase-related_protein_811371..811521_POSITIVE 243 117 71 145 81 tfor:TF2044|3end_excinuclease_ABC,_subunit_A_2206163..2206313_POSITIVE 236 115 73 98 58 tfor:TF1324|3end_conserved_hypothetical_protein_1403946..1404096_POSITIVE 233 123 99 73 50 tfor:TF2661|3end_hypothetical_protein_2835265..2835415_POSITIVE 233 108 64 134 84 tfor:TF0441|3end_Na+-transporting_NADH:ubiquinone_oxidoreductase,_subunit_3_465314..465464_POSITIVE 232 119 78 95 51 tfor:TF0771|3end_ABC_transporter,_ATP-binding/permease_component_818572..818722_POSITIVE 231 112 81 119 92 tfor:TF2653|3end_hypothetical_protein_2822460..2822610_POSITIVE 224 113 71 48 13 tfor:TF2874|3end_conserved_hypothetical_protein_3065224..3065374_POSITIVE 222 100 57 59 15 tfor:TF1935|3end_ATP-dependent_RNA_helicase,_DEAD/DEAH-related_helicase_2083881..2084031_POSITIVE 221 114 72 146 95 tfor:TF1139|3end_adenylosuccinate_lyase_1216667..1216817_POSITIVE 220 114 72 150 100 tfor:TF0054|3end_possible_flavodoxin_58460..58610_POSITIVE 217 106 68 51 11 tfor:TF1602|3end_L-aspartate_oxidase_1717224..1717374_POSITIVE 215 120 77 70 18 tfor:TF1429|3end_S-adenosyl-methyltransferase_1514918..1515068_POSITIVE