Origin IGS: taacgatttggaaacgagcgaagtgctttctgtcgcatgtttctacatcaacaaagaacgcttgttattctatattgcaaagataatcatttgctttgaataacaagcgtttttgataagaatttcattcatttgcgtcattattgagttttttggtgattaaaaatagagaagagatagctatta .........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 taatagctatctcttctctatttttaatcaccaaaaaactcaataatgacgcaaatgaatgaaattcttatcaaaaacgcttgttattcaaagcaaatgattatctttgcaatatagaataacaagcgttctttgttgatgtagaaacatgcgacagaaagcacttcgctcgtttccaaatcgtta Mask Tandem Repeat Region ================================================ taacgatttggaaacgagcgaagtgctttctgtcgcatgtttctacatcaacaaagaacgcttgttattctatattgcaaagataatcatttgctttgaataacaagcgtttttgataagaatttcattcatttgcgtcattattgagttttttggtgattaaaaatagagaagagatagctatta Find is-nt database================================================ Query_seq: TF1629:TF1630|TF1629:TF1630:hypothetical protein:mobilization protein:->->:1741976..1742161 186 taacgatttggaaacgagcgaagtgctttctgtcgcatgtttctacatcaacaaagaacgcttgttattctatattgcaaagataatcatttgctttgaataacaagcgtttttgataagaatttcattcatttgcgtcattattgagttttttggtgattaaaaatagagaagagatagctatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1629:TF1630|TF1629:TF1630:hypothetical protein:mobilization protein:->->:1741976..1742161 186 taacgatttggaaacgagcgaagtgctttctgtcgcatgtttctacatcaacaaagaacgcttgttattctatattgcaaagataatcatttgctttgaataacaagcgtttttgataagaatttcattcatttgcgtcattattgagttttttggtgattaaaaatagagaagagatagctatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1629:TF1630|TF1629:TF1630:hypothetical protein:mobilization protein:->->:1741976..1742161 186 taacgatttggaaacgagcgaagtgctttctgtcgcatgtttctacatcaacaaagaacgcttgttattctatattgcaaagataatcatttgctttgaataacaagcgtttttgataagaatttcattcatttgcgtcattattgagttttttggtgattaaaaatagagaagagatagctatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taacgatttggaaacgagcgaagtgctttctgtcgcatgtttctacatcaacaaagaacgcttgttattctatattgcaaagataatcatttgctttgaataacaagcgtttttgataagaatttcattcatttgcgtcattattgagttttttggtgattaaaaatagagaagagatagctatta Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: + Start: 8 End: 100 ....... M E T S E V L S V A C F Y I N K E R L L F Y I A K I I I C F E ...................................................................................... taacgatttggaaacgagcgaagtgctttctgtcgcatgtttctacatcaacaaagaacgcttgttattctatattgcaaagataatcatttgctttgaataacaagcgtttttgataagaatttcattcatttgcgtcattattgagttttttggtgattaaaaatagagaagagatagctatta 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================================================ taacgatttggaaacgagcgaagtgctttctgtcgcatgtttctacatcaacaaagaacgcttgttattctatattgcaaagataatcatttgctttgaataacaagcgtttttgataagaatttcattcatttgcgtcattattgagttttttggtgattaaaaatagagaagagatagctatta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF1629:TF1630|TF1629:TF1630:hypothetical protein:mobilization protein:->->:1741976..1742161 186 taacgatttggaaacgagcgaagtgctttctgtcgcatgtttctacatcaacaaagaacgcttgttattctatattgcaaagataatcatttgctttgaataacaagcgtttttgataagaatttcattcatttgcgtcattattgagttttttggtgattaaaaatagagaagagatagctatta Intra-Species Hit: Count: 1 Min: 1 Max: 186 Len: 186 Subject: tfor_TF1629_TF1630|hypothetical protein:mobilization protein|POSITIVE:POSITIVE|[1741976,1742161]|186 HSP 1 e-value: 1.0E-101 bit: 369.0 Len: 186 Query Start:1 Query End:186 Subject Strand: POSITIVE Subject Start: 1 Subject End: 186 taacgatttggaaacgagcgaagtgctttctgtcgcatgtttctacatcaacaaagaacgcttgttattctatattgcaaagataatcatttgctttgaataacaagcgtttttgataagaatttcattcatttgcgtcattattgagttttttggtgattaaaaatagagaagagatagctatta taacgatttggaaacgagcgaagtgctttctgtcgcatgtttctacatcaacaaagaacgcttgttattctatattgcaaagataatcatttgctttgaataacaagcgtttttgataagaatttcattcatttgcgtcattattgagttttttggtgattaaaaatagagaagagatagctatta Inter-species Hit: Count: 1 Min: 5 Max: 117 Len: 113 Subject: pint_PI0749_PI0750|hypothetical protein:zinc protease|POSITIVE:POSITIVE|[677530,677885]|356 HSP 1 e-value: 6.0E-34 bit: 145.0 Len: 113 Query Start:5 Query End:117 Subject Strand: NEGATIVE Subject Start: 67 Subject End: 178 ....gatttggaaacgagcgaagtgctttctgtcgcatgtttctacatcaacaaagaacgcttgttattctatattgcaaagataatcatttgctttgaataacaagcgtttttgat..................................................................... ....gatttggaaacgagcgaagtactttcaatcgcagatttctgcatcaacaaagaacgcttgttattctat-ctgcaaagataataatttgctttgaataacaagcgtttttgat..................................................................... Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAUUUGGAAACGAGCGAAGUGCUUUCUGUCGCAUGUUUCUACAUCAACAAAGAACGCUUGUUAUUCUAUAUUGCAAAGAUAAUCAUUUGCUUUGAAUAACAAGCGUUUUUGAU (((.((((((((.((((((......)).)))).)))))))).)))....(((((((((((((((((......(((((........)))))...)))))))))))))))))... (-43.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUCAAAAACGCUUGUUAUUCAAAGCAAAUGAUUAUCUUUGCAAUAUAGAAUAACAAGCGUUCUUUGUUGAUGUAGAAACAUGCGACAGAAAGCACUUCGCUCGUUUCCAAAUC ..((((((((((((((((((...(((((.(.....))))))......)))))))))))))).))))..(((...(((((..((((.((......))))))..)))))...))) (-33.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 291 59 12 96 59 tfor:TF0174|5end_hypothetical_protein_185362..185592_POSITIVE 288 58 11 231 173 tfor:TF1276|5end_acyl-CoA_dehydrogenase_(short_chain_coenzyme_A_dehydrogenase)_1361297..1361527_POSITIVE 286 60 11 68 21 tfor:TF0336|5end_Xaa-Pro_aminopeptidase_360613..360843_POSITIVE 284 58 11 195 141 tfor:TF2493|5end_4-hydroxybutyrate_coenzyme_A_transferase_2667003..2667233_POSITIVE 281 59 11 203 162 tfor:TF1803|5end_conserved_hypothetical_protein_1946327..1946557_POSITIVE 281 40 6 36 1 tfor:TF0959|5end_periplasmic_protease_1005218..1005448_POSITIVE 279 60 11 214 172 tfor:TF2224|5end_CTn_excision_protein_2394592..2394822_POSITIVE 276 42 4 46 13 tfor:TF2724|5end_anti-sigma_factor_2898193..2898423_POSITIVE 274 60 11 115 68 tfor:TF3142|5end_conserved_hypothetical_protein_3376357..3376587_POSITIVE 273 50 6 50 1 tfor:TF2894|5end_conserved_hypothetical_protein;_possible_Fic_family_protein_3082326..3082556_POSITIVE 273 60 11 67 6 tfor:TF2678|5end_GTP_cyclohydrolase_II_/3,4-dihydroxy-2-butanone-4-phoshate_synthase_2852036..2852266_POSITIVE 272 40 1 75 35 tfor:TF1002|5end_replicative_DNA_helicase_1056620..1056850_POSITIVE 269 60 11 98 45 tfor:TF1284|5end_glyceraldehyde_3-phosphate_dehydrogenase_1367939..1368169_POSITIVE 266 45 3 193 151 tfor:TF1179|5end_two-component_sensor_histidine_kinase_1266057..1266287_POSITIVE 265 55 12 223 170 tfor:TF1308|5end_50S_ribosomal_protein_L28_1387224..1387454_POSITIVE 264 45 11 198 162 tfor:TF0292|5end_conserved_hypothetical_protein_320087..320317_POSITIVE 263 64 21 67 11 tfor:TF1297|5end_hypothetical_protein_1379024..1379254_POSITIVE 261 57 11 72 25 tfor:TF1665|5end_conserved_hypothetical_protein_1779148..1779378_POSITIVE 260 46 11 219 190 tfor:TF2937|5end_translation_elongation_factor_Tu_3139238..3139468_POSITIVE 260 70 21 194 144 tfor:TF1045|5end_conserved_hypothetical_protein_1107665..1107895_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 291 59 12 77 40 tfor:TF0173|3end_hypothetical_protein_185423..185573_POSITIVE 288 58 11 144 86 tfor:TF1275|3end_transcription-repair_coupling_factor_1361290..1361440_POSITIVE 286 60 11 86 39 tfor:TF0337|3end_hypothetical_protein_360711..360861_POSITIVE 261 57 11 50 3 tfor:TF1664|3end_conserved_hypothetical_protein_1779206..1779356_POSITIVE 255 39 5 49 15 tfor:TF1422|3end_GLCNAC_transferase_(UDP-N-acetylglucosamine-N-acetylmuramyl-(pentapeptide)-pyr_ophosphoryl-undecaprenol_N-acetylglucosamine_transferase)_1505823..1505973_POSITIVE 255 59 11 74 31 tfor:TF0599|3end_hypothetical_protein_630130..630280_POSITIVE 252 50 4 66 15 tfor:TF1211|3end_phosphoserine_aminotransferase_1299847..1299997_POSITIVE 245 40 6 140 83 tfor:TF2418|3end_GTP-binding_protein_2598384..2598534_POSITIVE 245 58 11 151 95 tfor:TF0012|3end_conserved_hypothetical_protein_6641..6791_POSITIVE 244 49 5 67 24 tfor:TF2628|3end_conserved_hypothetical_protein_2801376..2801526_POSITIVE 241 45 6 135 92 tfor:TF1807|3end_thioesterase_family_protein_1949425..1949575_POSITIVE 240 48 6 62 12 tfor:TF2673|3end_conserved_hypothetical_protein_2848272..2848422_POSITIVE 240 102 72 145 114 tfor:TF0870|3end_conserved_hypothetical_protein_922430..922580_POSITIVE 237 46 1 40 1 tfor:TF2475|3end_GTP_pyrophosphokinase,_(p)ppGpp_synthetase_2654221..2654371_POSITIVE 237 60 11 124 68 tfor:TF2308|3end_conserved_hypothetical_protein_2468859..2469009_POSITIVE 236 35 11 34 13 tfor:TF0593|3end_membrane-associated_phospholipid_phosphatase_627051..627201_POSITIVE 234 60 11 109 59 tfor:TF2152|3end_uronate_isomerase_2328061..2328211_POSITIVE 234 56 11 70 24 tfor:TF0431|3end_hypothetical_protein_452470..452620_POSITIVE 234 56 11 103 57 tfor:TF0430|3end_hypothetical_protein_452503..452653_POSITIVE 231 60 12 103 49 tfor:TF2370|3end_tRNA_delta-2_isopentenylpyrophosphate_transferase_2537044..2537194_POSITIVE