Origin IGS: cgaaccgaattaaatgattatgaaaacaaaagtactcaaaatatttcgtcttccaagcagacagcggaaaatcacaggagaagcccgtcttttcttacagcgtgtatctttgcaacagtgcaaataaagagtgttcgtagagtttcaaaaagtagtttccgatacggttcatattctttccgttacccgccgaatgattttccggtattttttcttacctttgcggcgcttttttaaaggcctgtcgtcgtgtgatgggaaattaggaagcagaaactaattttgagtaacacaatttttagaaaa .........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 ttttctaaaaattgtgttactcaaaattagtttctgcttcctaatttcccatcacacgacgacaggcctttaaaaaagcgccgcaaaggtaagaaaaaataccggaaaatcattcggcgggtaacggaaagaatatgaaccgtatcggaaactactttttgaaactctacgaacactctttatttgcactgttgcaaagatacacgctgtaagaaaagacgggcttctcctgtgattttccgctgtctgcttggaagacgaaatattttgagtacttttgttttcataatcatttaattcggttcg Mask Tandem Repeat Region ================================================ cgaaccgaattaaatgattatgaaaacaaaagtactcaaaatatttcgtcttccaagcagacagcggaaaatcacaggagaagcccgtcttttcttacagcgtgtatctttgcaacagtgcaaataaagagtgttcgtagagtttcaaaaagtagtttccgatacggttcatattctttccgttacccgccgaatgattttccggtattttttcttacctttgcggcgcttttttaaaggcctgtcgtcgtgtgatgggaaattaggaagcagaaactaattttgagtaacacaatttttagaaaa Find is-nt database================================================ Query_seq: TF0756:TF0757|TF0756:TF0757:GDP-mannose dehydratase:50S ribosomal protein L25; general stress protein:->->:804388..804693 306 cgaaccgaattaaatgattatgaaaacaaaagtactcaaaatatttcgtcttccaagcagacagcggaaaatcacaggagaagcccgtcttttcttacagcgtgtatctttgcaacagtgcaaataaagagtgttcgtagagtttcaaaaagtagtttccgatacggttcatattctttccgttacccgccgaatgattttccggtattttttcttacctttgcggcgcttttttaaaggcctgtcgtcgtgtgatgggaaattaggaagcagaaactaattttgagtaacacaatttttagaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0756:TF0757|TF0756:TF0757:GDP-mannose dehydratase:50S ribosomal protein L25; general stress protein:->->:804388..804693 306 cgaaccgaattaaatgattatgaaaacaaaagtactcaaaatatttcgtcttccaagcagacagcggaaaatcacaggagaagcccgtcttttcttacagcgtgtatctttgcaacagtgcaaataaagagtgttcgtagagtttcaaaaagtagtttccgatacggttcatattctttccgttacccgccgaatgattttccggtattttttcttacctttgcggcgcttttttaaaggcctgtcgtcgtgtgatgggaaattaggaagcagaaactaattttgagtaacacaatttttagaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0756:TF0757|TF0756:TF0757:GDP-mannose dehydratase:50S ribosomal protein L25; general stress protein:->->:804388..804693 306 cgaaccgaattaaatgattatgaaaacaaaagtactcaaaatatttcgtcttccaagcagacagcggaaaatcacaggagaagcccgtcttttcttacagcgtgtatctttgcaacagtgcaaataaagagtgttcgtagagtttcaaaaagtagtttccgatacggttcatattctttccgttacccgccgaatgattttccggtattttttcttacctttgcggcgcttttttaaaggcctgtcgtcgtgtgatgggaaattaggaagcagaaactaattttgagtaacacaatttttagaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 cgaaccgaattaaatgattatgaaaacaaaagtactcaaaatatttcgtcttccaagcagacagcggaaaatcacaggagaagcccgtcttttcttacagcgtgtatctttgcaacagtgcaaataaagagtgttcgtagagtttcaaaaagtagtttccgatacggttcatattctttccgttacccgccgaatgattttccggtattttttcttacctttgcggcgcttttttaaaggcctgtcgtcgtgtgatgggaaattaggaagcagaaactaattttgagtaacacaatttttagaaaa Predict ORF larger than 30AA ================================================ Protein_Len: 37 Strand: + Start: 14 End: 124 ............. M I M K T K V L K I F R L P S R Q R K I T G E A R L F L Q R V S L Q Q C K ...................................................................................................................................................................................... Protein_Len: 60 Strand: + Start: 43 End: 234 .......................................... M S S S K Q T A E N H R R S P S F L T A C I F A T V Q I K S V R R V S K S S F R Y G S Y S F R Y P P N D F P V F F L T F ........................................................................ Protein_Len: 49 Strand: + Start: 131 End: 277 .................................................................................................................................. M F V E F Q K V V S D T V H I L S V T R R M I F R Y F F L P L R R F F K G L S S C D G K L G S R N ............................. Protein_Len: 34 Strand: - Start: 172 End: 273 ........................................................................................................................................................................... I R E T V R R I I K R Y K K K G K R R K K L P R D D H S P F N P L M ................................. Protein_Len: 37 Strand: - Start: 98 End: 208 ................................................................................................. L T Y R Q L L A F L S H E Y L K L F Y N G I R N M N K G N G A S H N E P M .................................................................................................. Protein_Len: 37 Strand: - Start: 13 End: 123 ............ I I I F V F T S L I N R R G L L C R F I V P S A R R K K C R T D K C C H M ....................................................................................................................................................................................... cgaaccgaattaaatgattatgaaaacaaaagtactcaaaatatttcgtcttccaagcagacagcggaaaatcacaggagaagcccgtcttttcttacagcgtgtatctttgcaacagtgcaaataaagagtgttcgtagagtttcaaaaagtagtttccgatacggttcatattctttccgttacccgccgaatgattttccggtattttttcttacctttgcggcgcttttttaaaggcctgtcgtcgtgtgatgggaaattaggaagcagaaactaattttgagtaacacaatttttagaaaa 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================================================ cgaaccgaattaaatgattatgaaaacaaaagtactcaaaatatttcgtcttccaagcagacagcggaaaatcacaggagaagcccgtcttttcttacagcgtgtatctttgcaacagtgcaaataaagagtgttcgtagagtttcaaaaagtagtttccgatacggttcatattctttccgttacccgccgaatgattttccggtattttttcttacctttgcggcgcttttttaaaggcctgtcgtcgtgtgatgggaaattaggaagcagaaactaattttgagtaacacaatttttagaaaa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF0756:TF0757|TF0756:TF0757:GDP-mannose dehydratase:50S ribosomal protein L25; general stress protein:->->:804388..804693 306 cgaaccgaattaaatgattatgaaaacaaaagtactcaaaatatttcgtcttccaagcagacagcggaaaatcacaggagaagcccgtcttttcttacagcgtgtatctttgcaacagtgcaaataaagagtgttcgtagagtttcaaaaagtagtttccgatacggttcatattctttccgttacccgccgaatgattttccggtattttttcttacctttgcggcgcttttttaaaggcctgtcgtcgtgtgatgggaaattaggaagcagaaactaattttgagtaacacaatttttagaaaa Intra-Species Hit: Count: 1 Min: 1 Max: 306 Len: 306 Subject: tfor_TF0756_TF0757|GDP-mannose dehydratase:50S ribosomal protein L25; general stress protein|POSITIVE:POSITIVE|[804388,804693]|306 HSP 1 e-value: 1.0E-173 bit: 607.0 Len: 306 Query Start:1 Query End:306 Subject Strand: POSITIVE Subject Start: 1 Subject End: 306 cgaaccgaattaaatgattatgaaaacaaaagtactcaaaatatttcgtcttccaagcagacagcggaaaatcacaggagaagcccgtcttttcttacagcgtgtatctttgcaacagtgcaaataaagagtgttcgtagagtttcaaaaagtagtttccgatacggttcatattctttccgttacccgccgaatgattttccggtattttttcttacctttgcggcgcttttttaaaggcctgtcgtcgtgtgatgggaaattaggaagcagaaactaattttgagtaacacaatttttagaaaa cgaaccgaattaaatgattatgaaaacaaaagtactcaaaatatttcgtcttccaagcagacagcggaaaatcacaggagaagcccgtcttttcttacagcgtgtatctttgcaacagtgcaaataaagagtgttcgtagagtttcaaaaagtagtttccgatacggttcatattctttccgttacccgccgaatgattttccggtattttttcttacctttgcggcgcttttttaaaggcctgtcgtcgtgtgatgggaaattaggaagcagaaactaattttgagtaacacaatttttagaaaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CGAACCGAAUUAAAUGAUUAUGAAAACAAAAGUACUCAAAAUAUUUCGUCUUCCAAGCAGACAGCGGAAAAUCACAGGAGAAGCCCGUCUUUUCUUACAGCGUGUAUCUUUGCAACAGUGCAAAUAAAGAGUGUUCGUAGAGUUUCAAAAAGUAGUUUCCGAUACGGUUCAUAUUCUUUCCGUUACCCGCCGAAUGAUUUUCCGGUAUUUUUUCUUACCUUUGCGGCGCUUUUUUAAAGGCCUGUCGUCGUGUGAUGGGAAAUUAGGAAGCAGAAACUAAUUUUGAGUAACACAAUUUUUAGAAAA ....................((((((......((((((((((.((((..(((((..........((((((((((.((((((((.....))))))))...(((.(((..((((((....)))))).((((((((((((((..(.................)..)))))...)))))))))....))).)))....))))))))))....(((..(((((....((((((((((....)))))..)))))...)))).)..)))...)))))..))))...))))))))))......))))))..... (-70.33) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUUCUAAAAAUUGUGUUACUCAAAAUUAGUUUCUGCUUCCUAAUUUCCCAUCACACGACGACAGGCCUUUAAAAAAGCGCCGCAAAGGUAAGAAAAAAUACCGGAAAAUCAUUCGGCGGGUAACGGAAAGAAUAUGAACCGUAUCGGAAACUACUUUUUGAAACUCUACGAACACUCUUUAUUUGCACUGUUGCAAAGAUACACGCUGUAAGAAAAGACGGGCUUCUCCUGUGAUUUUCCGCUGUCUGCUUGGAAGACGAAAUAUUUUGAGUACUUUUGUUUUCAUAAUCAUUUAAUUCGGUUCG .......(((((.....((((((((((..(((((..(((((..........((....)).(((((..............(((.....)))............(((((((((...(((((.(((.(((((((.(((((...))))).(....)..))))))).....................((((((....))))))..))).))))).........(((((.....))))))))))))))))))).....)))))..))))))))))))))).....)))))...................... (-64.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 375 248 202 61 7 tfor:TF2876|5end_cytosine_deaminase_3065144..3065374_POSITIVE 370 270 221 175 128 tfor:TF1901|5end_conserved_hypothetical_protein_2056467..2056697_POSITIVE 361 229 181 130 79 tfor:TF1891|5end_hypothetical_protein_2043389..2043619_POSITIVE 359 121 83 226 178 tfor:TF1928|5end_conserved_hypothetical_protein_2075529..2075759_POSITIVE 356 226 186 192 151 tfor:TF1275|5end_transcription-repair_coupling_factor_1357866..1358096_POSITIVE 353 230 181 193 138 tfor:TF0310|5end_conserved_hypothetical_protein_334685..334915_POSITIVE 352 230 187 153 112 tfor:TF2880|5end_phenylalanyl-tRNA_synthetase,_beta_subunit_3069052..3069282_POSITIVE 352 229 189 176 137 tfor:TF0992|5end_hypothetical_protein_1048251..1048481_POSITIVE 350 193 158 54 15 tfor:TF2898|5end_conserved_hypothetical_protein_3087061..3087291_POSITIVE 348 260 211 43 1 tfor:TF2705|5end_conserved_hypothetical_protein;_possible_SufE_Fe/S-cluster-related_protein_2876850..2877080_POSITIVE 347 210 161 174 120 tfor:TF1462|5end_erythronate-4-phosphate_dehydrogenase_1552184..1552414_POSITIVE 347 194 151 197 143 tfor:TF1270|5end_hypothetical_protein_1355273..1355503_POSITIVE 347 194 151 124 70 tfor:TF1271|5end_hypothetical_protein_1355200..1355430_POSITIVE 346 258 217 77 43 tfor:TF2833|5end_lipid_A_disaccharide_synthase_3023973..3024203_POSITIVE 346 250 201 212 160 tfor:TF2789|5end_enoyl-[acyl-carrier-protein]_reductase_2972431..2972661_POSITIVE 341 255 211 228 175 tfor:TF2949|5end_dihydroxynaphthoate_synthase_(naphthoate_synthase)_3156578..3156808_POSITIVE 339 229 181 55 11 tfor:TF0496|5end_conserved_hypothetical_protein_522332..522562_POSITIVE 339 117 74 199 155 tfor:TF0358|5end_hypothetical_protein_375616..375846_POSITIVE 336 229 188 51 8 tfor:TF2575|5end_methionine_aminopeptidase_2745126..2745356_POSITIVE 336 108 64 227 184 tfor:TF0538|5end_hypothetical_protein_566891..567121_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 403 260 219 96 60 tfor:TF2078|3end_dehydrogenase_2245471..2245621_POSITIVE 390 259 213 95 48 tfor:TF0608|3end_isoleucyl-tRNA_synthetase_641418..641568_POSITIVE 375 248 202 61 7 tfor:TF2874|3end_conserved_hypothetical_protein_3065224..3065374_POSITIVE 356 226 186 141 100 tfor:TF1274|3end_hypothetical_protein_1357895..1358045_POSITIVE 336 229 188 45 2 tfor:TF2574|3end_preprotein_translocase_SecY_2745200..2745350_POSITIVE 336 108 64 92 49 tfor:TF0537|3end_conserved_hypothetical_protein_566836..566986_POSITIVE 334 108 64 92 49 tfor:TF0541|3end_conserved_hypothetical_protein_571858..572008_POSITIVE 330 245 208 37 2 tfor:TF0379|3end_conserved_hypothetical_protein,_nif3_family_400632..400782_POSITIVE 324 100 51 68 21 tfor:TF2657|3end_conserved_hypothetical_protein_2830873..2831023_POSITIVE 320 230 181 83 38 tfor:TF0599|3end_hypothetical_protein_630130..630280_POSITIVE 319 258 220 146 112 tfor:TF1900|3end_conserved_hypothetical_protein_2056532..2056682_POSITIVE 312 210 164 148 108 tfor:TF0192|3end_hypothetical_protein_207984..208134_POSITIVE 311 196 159 148 107 tfor:TF1461|3end_DNA-damage-inducible_protein_F_1552253..1552403_POSITIVE 310 230 181 148 86 tfor:TF0636|3end_beta-galactosidase_673284..673434_POSITIVE 310 273 237 63 18 tfor:TF0072|3end_hypothetical_protein_81070..81220_POSITIVE 308 79 33 129 80 tfor:TF2526|3end_outer_membrane_protein,_TonB_dependent_receptor_2709007..2709157_POSITIVE 308 180 131 56 4 tfor:TF2023|3end_possible_Fe-S_oxidoreductase_2181523..2181673_POSITIVE 307 86 42 94 51 tfor:TF1182|3end_hypothetical_protein_1268938..1269088_POSITIVE 306 253 215 140 99 tfor:TF2488|3end_hypothetical_protein_2664478..2664628_POSITIVE 305 205 165 151 115 tfor:TF0764|3end_conserved_hypothetical_protein;_possible_exopolyphosphatase-related_protein_811371..811521_POSITIVE