Origin IGS: tgactcaattgaattgaaaacatgttatataacatatatggttgttattttattctaaaaaaaacggatacttttgcggattctaaaaaaaacagcttgaagataaaaaagtgagccatacaaagtcagataataagatgtcgataagtaggaataagaacacttttcgaggcttttgcactctatacgagagtatggcaaagatatttttgttaatatttgcaaatattaacatggggggggtacttttatttaattattctgccgagttttta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taaaaactcggcagaataattaaataaaagtaccccccccatgttaatatttgcaaatattaacaaaaatatctttgccatactctcgtatagagtgcaaaagcctcgaaaagtgttcttattcctacttatcgacatcttattatctgactttgtatggctcacttttttatcttcaagctgttttttttagaatccgcaaaagtatccgttttttttagaataaaataacaaccatatatgttatataacatgttttcaattcaattgagtca Mask Tandem Repeat Region ================================================ tgactcaattgaattgaaaacatgttatataacatatatggttgttattttattctaaaaaaaacggatacttttgcggattctaaaaaaaacagcttgaagataaaaaagtgagccatacaaagtcagataataagatgtcgataagtaggaataagaacacttttcgaggcttttgcactctatacgagagtatggcaaagatatttttgttaatatttgcaaatattaacatggggggggtacttttatttaattattctgccgagttttta Find is-nt database================================================ Query_seq: TF0274:TF0276|TF0274:TF0276:hypothetical protein:hypothetical protein:->->:300549..300823 275 tgactcaattgaattgaaaacatgttatataacatatatggttgttattttattctaaaaaaaacggatacttttgcggattctaaaaaaaacagcttgaagataaaaaagtgagccatacaaagtcagataataagatgtcgataagtaggaataagaacacttttcgaggcttttgcactctatacgagagtatggcaaagatatttttgttaatatttgcaaatattaacatggggggggtacttttatttaattattctgccgagttttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0274:TF0276|TF0274:TF0276:hypothetical protein:hypothetical protein:->->:300549..300823 275 tgactcaattgaattgaaaacatgttatataacatatatggttgttattttattctaaaaaaaacggatacttttgcggattctaaaaaaaacagcttgaagataaaaaagtgagccatacaaagtcagataataagatgtcgataagtaggaataagaacacttttcgaggcttttgcactctatacgagagtatggcaaagatatttttgttaatatttgcaaatattaacatggggggggtacttttatttaattattctgccgagttttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0274:TF0276|TF0274:TF0276:hypothetical protein:hypothetical protein:->->:300549..300823 275 tgactcaattgaattgaaaacatgttatataacatatatggttgttattttattctaaaaaaaacggatacttttgcggattctaaaaaaaacagcttgaagataaaaaagtgagccatacaaagtcagataataagatgtcgataagtaggaataagaacacttttcgaggcttttgcactctatacgagagtatggcaaagatatttttgttaatatttgcaaatattaacatggggggggtacttttatttaattattctgccgagttttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgactcaattgaattgaaaacatgttatataacatatatggttgttattttattctaaaaaaaacggatacttttgcggattctaaaaaaaacagcttgaagataaaaaagtgagccatacaaagtcagataataagatgtcgataagtaggaataagaacacttttcgaggcttttgcactctatacgagagtatggcaaagatatttttgttaatatttgcaaatattaacatggggggggtacttttatttaattattctgccgagttttta Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: + Start: 13 End: 111 ............ M E N M L Y N I Y G C Y F I L K K T D T F A D S K K N S L K I K K .................................................................................................................................................................... Protein_Len: 55 Strand: + Start: 111 End: 275 .............................................................................................................. M S H T K S D N K M S I S R N K N T F R G F C T L Y E S M A K I F L L I F A N I N M G G V L L F N Y S A E F L Protein_Len: 50 Strand: - Start: 86 End: 235 ..................................................................................... F F C S S S L F T L W V F D S L L I D I L L F L F V K R P K Q V R Y S L I A F I N K N I N A F I L M ........................................ Protein_Len: 56 Strand: - Start: 58 End: 225 ......................................................... F F R I S K R I R F F V A Q L Y F L S G Y L T L Y Y S T S L Y S Y S C K E L S K C E I R S Y P L S I K T L I Q M .................................................. tgactcaattgaattgaaaacatgttatataacatatatggttgttattttattctaaaaaaaacggatacttttgcggattctaaaaaaaacagcttgaagataaaaaagtgagccatacaaagtcagataataagatgtcgataagtaggaataagaacacttttcgaggcttttgcactctatacgagagtatggcaaagatatttttgttaatatttgcaaatattaacatggggggggtacttttatttaattattctgccgagttttta 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: 80 End: 109 ...............................................................................TTTTTATCTTCAAGCTGTTTTTTTTAGAAT...................................................................................................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ tgactcaattgaattgaaaacatgttatataacatatatggttgttattttattctaaaaaaaacggatacttttgcggattctaaaaaaaacagcttgaagataaaaaagtgagccatacaaagtcagataataagatgtcgataagtaggaataagaacacttttcgaggcttttgcactctatacgagagtatggcaaagatatttttgttaatatttgcaaatattaacatggggggggtacttttatttaattattctgccgagttttta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF0274:TF0276|TF0274:TF0276:hypothetical protein:hypothetical protein:->->:300549..300823 275 tgactcaattgaattgaaaacatgttatataacatatatggttgttattttattctaaaaaaaacggatacttttgcggattctaaaaaaaacagcttgaagataaaaaagtgagccatacaaagtcagataataagatgtcgataagtaggaataagaacacttttcgaggcttttgcactctatacgagagtatggcaaagatatttttgttaatatttgcaaatattaacatggggggggtacttttatttaattattctgccgagttttta Intra-Species Hit: Count: 1 Min: 1 Max: 275 Len: 275 Subject: tfor_TF0274_TF0276|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[300549,300823]|275 HSP 1 e-value: 1.0E-111 bit: 402.0 Len: 275 Query Start:1 Query End:275 Subject Strand: POSITIVE Subject Start: 1 Subject End: 275 tgactcaattgaattgaaaacatgttatataacatatatggttgttattttattctnnnnnnnncggatacttttgcggattctnnnnnnnncagcttgaagataaaaaagtgagccatacaaagtcagataataagatgtcgataagtaggaataagaacacttttcgaggcttttgcactctatacgagagtatggcaaagatatttttgttaatatttgcaaatattaacatnnnnnnnntacttttatttaattattctgccgagttttta tgactcaattgaattgaaaacatgttatataacatatatggttgttattttattctaaaaaaaacggatacttttgcggattctaaaaaaaacagcttgaagataaaaaagtgagccatacaaagtcagataataagatgtcgataagtaggaataagaacacttttcgaggcttttgcactctatacgagagtatggcaaagatatttttgttaatatttgcaaatattaacatggggggggtacttttatttaattattctgccgagttttta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGACUCAAUUGAAUUGAAAACAUGUUAUAUAACAUAUAUGGUUGUUAUUUUAUUCUAAAAAAAACGGAUACUUUUGCGGAUUCUAAAAAAAACAGCUUGAAGAUAAAAAAGUGAGCCAUACAAAGUCAGAUAAUAAGAUGUCGAUAAGUAGGAAUAAGAACACUUUUCGAGGCUUUUGCACUCUAUACGAGAGUAUGGCAAAGAUAUUUUUGUUAAUAUUUGCAAAUAUUAACAUGGGGGGGGUACUUUUAUUUAAUUAUUCUGCCGAGUUUUUA .(((((..............(((((((.((((((........))))))........................(((((((((..(((.(((((..((((..........))))..(((((((............((((((.((((.((((.(.........))))).)))).).)))))..(((.....))).))))))).......))))).)))..)))))))))...)))))))((.((((((.((......)).)))))).))))))).... (-51.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAAACUCGGCAGAAUAAUUAAAUAAAAGUACCCCCCCCAUGUUAAUAUUUGCAAAUAUUAACAAAAAUAUCUUUGCCAUACUCUCGUAUAGAGUGCAAAAGCCUCGAAAAGUGUUCUUAUUCCUACUUAUCGACAUCUUAUUAUCUGACUUUGUAUGGCUCACUUUUUUAUCUUCAAGCUGUUUUUUUUAGAAUCCGCAAAAGUAUCCGUUUUUUUUAGAAUAAAAUAACAACCAUAUAUGUUAUAUAACAUGUUUUCAAUUCAAUUGAGUCA .....((((((..((((........((((((..........((((((((((....))))))))))...........(((((((....((.((((......(((..((((.(((((..........))))).))))...)))....))))))...)))))))..))))))..........(.((((((((((((((...((..........))...)))))))).)))))).)......(((((((....))))))).....))))..)))))).. (-44.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 374 199 160 175 126 tfor:TF2760|5end_MarR__family_transcriptional_regulator_2945019..2945249_POSITIVE 362 103 62 44 2 tfor:TF2413|5end_hypothetical_protein_2590376..2590606_POSITIVE 321 199 151 186 136 tfor:TF1763|5end_K+-dependent_Na+/Ca+_exchanger_related-protein_1900406..1900636_POSITIVE 291 200 151 149 97 tfor:TF2639|5end_hypothetical_protein_2809020..2809250_POSITIVE 275 200 163 68 37 tfor:TF3116|5end_conserved_hypothetical_protein_3352136..3352366_POSITIVE 271 198 151 216 167 tfor:TF2278|5end_conserved_hypothetical_protein_2438662..2438892_POSITIVE 267 210 164 147 100 tfor:TF3033|5end_S1_RNA_binding_domain_protein,_S1_ribosomal_protein_3256786..3257016_POSITIVE 266 197 151 65 9 tfor:TF1031|5end_conserved_hypothetical_protein_1089560..1089790_POSITIVE 261 199 156 119 68 tfor:TF2309|5end_cysteinyl-tRNA_synthetase_2468892..2469122_POSITIVE 260 196 151 229 189 tfor:TF0009|5end_transcriptional_regulator_3491..3721_POSITIVE 253 197 151 231 183 tfor:TF2640|5end_hypothetical_protein_2809106..2809336_POSITIVE 253 190 142 210 162 tfor:TF0297|5end_RNA_polymerase_sigma-70_factor,_ECF_subfamily_322234..322464_POSITIVE 250 203 168 209 172 tfor:TF2224|5end_CTn_excision_protein_2394592..2394822_POSITIVE 249 251 229 215 191 tfor:TF0133|5end_transposase_element_145174..145404_POSITIVE 244 199 165 181 145 tfor:TF1212|5end_conserved_hypothetical_protein_1299792..1300022_POSITIVE 243 200 158 52 8 tfor:TF2308|5end_conserved_hypothetical_protein_2466932..2467162_POSITIVE 242 205 161 67 26 tfor:TF1388|5end_hypothetical_protein_1461785..1462015_POSITIVE 241 200 160 195 139 tfor:TF2238|5end_conserved_hypothetical_protein_2414098..2414328_POSITIVE 241 200 151 76 18 tfor:TF1648|5end_hypothetical_protein_1759338..1759568_POSITIVE 240 199 151 61 11 tfor:TF2033|5end_conserved_hypothetical_protein_2191529..2191759_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 291 200 151 100 48 tfor:TF2638|3end_cation_transport_protein_2809051..2809201_POSITIVE 270 267 236 113 73 tfor:TF1985|3end_surface_antigen_BspA_2136905..2137055_POSITIVE 267 210 164 119 72 tfor:TF3032|3end_thiamin_biosynthesis_protein_3256838..3256988_POSITIVE 263 270 221 146 79 tfor:TF2201|3end_hypothetical_protein_2378284..2378434_POSITIVE 241 202 164 58 25 tfor:TF3033|3end_S1_RNA_binding_domain_protein,_S1_ribosomal_protein_3258983..3259133_POSITIVE 238 198 151 50 6 tfor:TF1886|3end_auxin-regulated_protein_2040341..2040491_POSITIVE 238 207 163 69 20 tfor:TF0996|3end_ribonuclease_D_1051555..1051705_POSITIVE 234 184 141 136 77 tfor:TF2193|3end_outer_membrane_protein,_TonB_dependent_receptor_2371736..2371886_POSITIVE 233 179 135 136 97 tfor:TF0296|3end_hypothetical_protein_322257..322407_POSITIVE 228 245 202 150 97 tfor:TF3036|3end_glucose/galactose_transporter_3263051..3263201_POSITIVE 227 209 161 89 40 tfor:TF2340|3end_hypothetical_protein_2500915..2501065_POSITIVE 227 195 151 151 100 tfor:TF0623|3end_type_II_DNA_modification_enzyme;_methyltransferase_659550..659700_POSITIVE 226 270 235 103 66 tfor:TF2149|3end_deoxyribose-phosphate_aldolase_2323110..2323260_POSITIVE 225 212 172 61 19 tfor:TF2556|3end_conserved_hypothetical_protein_2737095..2737245_POSITIVE 224 175 156 25 5 tfor:TF2557|3end_30S_ribosomal_protein_S19_2737513..2737663_POSITIVE 224 250 211 46 3 tfor:TF2404|3end_hypothetical_protein_2579995..2580145_POSITIVE 224 170 127 113 66 tfor:TF2276|3end_conserved_hypothetical_protein_2438725..2438875_POSITIVE 223 145 110 85 49 tfor:TF2824|3end_nucleoside-transporting_protein_nupG_3016082..3016232_POSITIVE 222 206 163 70 19 tfor:TF2873|3end_conserved_hypothetical_protein_3064966..3065116_POSITIVE 222 184 160 151 125 tfor:TF0153|3end_conserved_hypothetical_protein_163615..163765_POSITIVE