Origin IGS: gttctttcggtttttagtgttaataactcattttgtttttcacatcctccgctgcacgtgcccaacggattccgtgttttctatgaaacaatccgagtgatgagatagttttgaaaaaagttttttgggactgcaaatccccgtatgttacaagaaaagtcgacgatttaatatgttcaattttttgtctacttttaatccgccggattaagttgcttttgtctttaccggaatgggttcagaagtttaaagagccaagaacagacatcaagagagttggcggtcacttttacaagtacccaatggaatactgctataacaagcagaagaagcggacagataacattaatctgagcatctctgtta .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9 taacagagatgctcagattaatgttatctgtccgcttcttctgcttgttatagcagtattccattgggtacttgtaaaagtgaccgccaactctcttgatgtctgttcttggctctttaaacttctgaacccattccggtaaagacaaaagcaacttaatccggcggattaaaagtagacaaaaaattgaacatattaaatcgtcgacttttcttgtaacatacggggatttgcagtcccaaaaaacttttttcaaaactatctcatcactcggattgtttcatagaaaacacggaatccgttgggcacgtgcagcggaggatgtgaaaaacaaaatgagttattaacactaaaaaccgaaagaac Mask Tandem Repeat Region ================================================ gttctttcggtttttagtgttaataactcattttgtttttcacatcctccgctgcacgtgcccaacggattccgtgttttctatgaaacaatccgagtgatgagatagttttgaaaaaagttttttgggactgcaaatccccgtatgttacaagaaaagtcgacgatttaatatgttcaattttttgtctacttttaatccgccggattaagttgcttttgtctttaccggaatgggttcagaagtttaaagagccaagaacagacatcaagagagttggcggtcacttttacaagtacccaatggaatactgctataacaagcagaagaagcggacagataacattaatctgagcatctctgtta Find is-nt database================================================ Query_seq: TF0137:TF0139|TF0137:TF0139:conserved hypothetical protein:4-diphosphocytidyl-2c-methyl-D-erythritol synthase (MEP cytidylyltransferase) (MCT):->->:147301..147666 366 gttctttcggtttttagtgttaataactcattttgtttttcacatcctccgctgcacgtgcccaacggattccgtgttttctatgaaacaatccgagtgatgagatagttttgaaaaaagttttttgggactgcaaatccccgtatgttacaagaaaagtcgacgatttaatatgttcaattttttgtctacttttaatccgccggattaagttgcttttgtctttaccggaatgggttcagaagtttaaagagccaagaacagacatcaagagagttggcggtcacttttacaagtacccaatggaatactgctataacaagcagaagaagcggacagataacattaatctgagcatctctgtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0137:TF0139|TF0137:TF0139:conserved hypothetical protein:4-diphosphocytidyl-2c-methyl-D-erythritol synthase (MEP cytidylyltransferase) (MCT):->->:147301..147666 366 gttctttcggtttttagtgttaataactcattttgtttttcacatcctccgctgcacgtgcccaacggattccgtgttttctatgaaacaatccgagtgatgagatagttttgaaaaaagttttttgggactgcaaatccccgtatgttacaagaaaagtcgacgatttaatatgttcaattttttgtctacttttaatccgccggattaagttgcttttgtctttaccggaatgggttcagaagtttaaagagccaagaacagacatcaagagagttggcggtcacttttacaagtacccaatggaatactgctataacaagcagaagaagcggacagataacattaatctgagcatctctgtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0137:TF0139|TF0137:TF0139:conserved hypothetical protein:4-diphosphocytidyl-2c-methyl-D-erythritol synthase (MEP cytidylyltransferase) (MCT):->->:147301..147666 366 gttctttcggtttttagtgttaataactcattttgtttttcacatcctccgctgcacgtgcccaacggattccgtgttttctatgaaacaatccgagtgatgagatagttttgaaaaaagttttttgggactgcaaatccccgtatgttacaagaaaagtcgacgatttaatatgttcaattttttgtctacttttaatccgccggattaagttgcttttgtctttaccggaatgggttcagaagtttaaagagccaagaacagacatcaagagagttggcggtcacttttacaagtacccaatggaatactgctataacaagcagaagaagcggacagataacattaatctgagcatctctgtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gttctttcggtttttagtgttaataactcattttgtttttcacatcctccgctgcacgtgcccaacggattccgtgttttctatgaaacaatccgagtgatgagatagttttgaaaaaagttttttgggactgcaaatccccgtatgttacaagaaaagtcgacgatttaatatgttcaattttttgtctacttttaatccgccggattaagttgcttttgtctttaccggaatgggttcagaagtttaaagagccaagaacagacatcaagagagttggcggtcacttttacaagtacccaatggaatactgctataacaagcagaagaagcggacagataacattaatctgagcatctctgtta Predict ORF larger than 30AA ================================================ Protein_Len: 60 Strand: + Start: 105 End: 365 ........................................................................................................ M V L K K V F W D C K S P Y V T R K V D D L I C S I F C L L L I R R I K L L L S L P E W V Q K F K E P R T D I K R V G G . Protein_Len: 41 Strand: - Start: 228 End: 350 ................................................................................................................................................................................................................................... R F P N L L K F L W S C V D L S N A T V K V L V W H F V A I V L L L L P C I V N M ................ Protein_Len: 32 Strand: - Start: 43 End: 138 .......................................... M R R Q V H G V S E T N E I F C D S H H S L K S F L K K P S C M .................................................................................................................................................................................................................................... Protein_Len: 60 Strand: - Start: 23 End: 208 ...................... M K N K V D E A A R A W R I G H K R H F L G L S S I T K F F T K Q S Q L D G Y T V L F T S S K I H E I K Q R S K I R R M .............................................................................................................................................................. gttctttcggtttttagtgttaataactcattttgtttttcacatcctccgctgcacgtgcccaacggattccgtgttttctatgaaacaatccgagtgatgagatagttttgaaaaaagttttttgggactgcaaatccccgtatgttacaagaaaagtcgacgatttaatatgttcaattttttgtctacttttaatccgccggattaagttgcttttgtctttaccggaatgggttcagaagtttaaagagccaagaacagacatcaagagagttggcggtcacttttacaagtacccaatggaatactgctataacaagcagaagaagcggacagataacattaatctgagcatctctgtta 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================================================ gttctttcggtttttagtgttaataactcattttgtttttcacatcctccgctgcacgtgcccaacggattccgtgttttctatgaaacaatccgagtgatgagatagttttgaaaaaagttttttgggactgcaaatccccgtatgttacaagaaaagtcgacgatttaatatgttcaattttttgtctacttttaatccgccggattaagttgcttttgtctttaccggaatgggttcagaagtttaaagagccaagaacagacatcaagagagttggcggtcacttttacaagtacccaatggaatactgctataacaagcagaagaagcggacagataacattaatctgagcatctctgtta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF0137:TF0139|TF0137:TF0139:conserved hypothetical protein:4-diphosphocytidyl-2c-methyl-D-erythritol synthase (MEP cytidylyltransferase) (MCT):->->:147301..147666 366 gttctttcggtttttagtgttaataactcattttgtttttcacatcctccgctgcacgtgcccaacggattccgtgttttctatgaaacaatccgagtgatgagatagttttgaaaaaagttttttgggactgcaaatccccgtatgttacaagaaaagtcgacgatttaatatgttcaattttttgtctacttttaatccgccggattaagttgcttttgtctttaccggaatgggttcagaagtttaaagagccaagaacagacatcaagagagttggcggtcacttttacaagtacccaatggaatactgctataacaagcagaagaagcggacagataacattaatctgagcatctctgtta Intra-Species Hit: Count: 1 Min: 1 Max: 366 Len: 366 Subject: tfor_TF0137_TF0139|conserved hypothetical protein:4-diphosphocytidyl-2c-methyl-D-erythritol synthase (MEP cytidylyltransferase) (MCT)|POSITIVE:POSITIVE|[147301,147666]|366 HSP 1 e-value: 0.0 bit: 726.0 Len: 366 Query Start:1 Query End:366 Subject Strand: POSITIVE Subject Start: 1 Subject End: 366 gttctttcggtttttagtgttaataactcattttgtttttcacatcctccgctgcacgtgcccaacggattccgtgttttctatgaaacaatccgagtgatgagatagttttgaaaaaagttttttgggactgcaaatccccgtatgttacaagaaaagtcgacgatttaatatgttcaattttttgtctacttttaatccgccggattaagttgcttttgtctttaccggaatgggttcagaagtttaaagagccaagaacagacatcaagagagttggcggtcacttttacaagtacccaatggaatactgctataacaagcagaagaagcggacagataacattaatctgagcatctctgtta gttctttcggtttttagtgttaataactcattttgtttttcacatcctccgctgcacgtgcccaacggattccgtgttttctatgaaacaatccgagtgatgagatagttttgaaaaaagttttttgggactgcaaatccccgtatgttacaagaaaagtcgacgatttaatatgttcaattttttgtctacttttaatccgccggattaagttgcttttgtctttaccggaatgggttcagaagtttaaagagccaagaacagacatcaagagagttggcggtcacttttacaagtacccaatggaatactgctataacaagcagaagaagcggacagataacattaatctgagcatctctgtta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUUCUUUCGGUUUUUAGUGUUAAUAACUCAUUUUGUUUUUCACAUCCUCCGCUGCACGUGCCCAACGGAUUCCGUGUUUUCUAUGAAACAAUCCGAGUGAUGAGAUAGUUUUGAAAAAAGUUUUUUGGGACUGCAAAUCCCCGUAUGUUACAAGAAAAGUCGACGAUUUAAUAUGUUCAAUUUUUUGUCUACUUUUAAUCCGCCGGAUUAAGUUGCUUUUGUCUUUACCGGAAUGGGUUCAGAAGUUUAAAGAGCCAAGAACAGACAUCAAGAGAGUUGGCGGUCACUUUUACAAGUACCCAAUGGAAUACUGCUAUAACAAGCAGAAGAAGCGGACAGAUAACAUUAAUCUGAGCAUCUCUGUUA .....(((((...(((((((((...........(((.....)))...((((((...(((.....))).(((((((..(((((.((.((((...((.(.(((..(.((((((..((((....))))..)))))))..)))).))..)))).))))))).((((((..(((....(((((..(((((((...(((((((((((.((((...(((..((....)))))..))))...))))).)))))).)))))))....))))).......)))..))))))((..((((....))))..)).))))))).(((((......)))))....))))))....))))))))).)))))........... (-83.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAACAGAGAUGCUCAGAUUAAUGUUAUCUGUCCGCUUCUUCUGCUUGUUAUAGCAGUAUUCCAUUGGGUACUUGUAAAAGUGACCGCCAACUCUCUUGAUGUCUGUUCUUGGCUCUUUAAACUUCUGAACCCAUUCCGGUAAAGACAAAAGCAACUUAAUCCGGCGGAUUAAAAGUAGACAAAAAAUUGAACAUAUUAAAUCGUCGACUUUUCUUGUAACAUACGGGGAUUUGCAGUCCCAAAAAACUUUUUUCAAAACUAUCUCAUCACUCGGAUUGUUUCAUAGAAAACACGGAAUCCGUUGGGCACGUGCAGCGGAGGAUGUGAAAAACAAAAUGAGUUAUUAACACUAAAAACCGAAAGAAC .....(((((((.(((((.......)))))...)).....(((((......))))).......(((((.(((.(((((.....(((((.........((.(((.......)))))........(((..(((......)))..))).................)))))...((((((.(((......................))).))))))((((((...))))))..)))))))))))))..................)))))...(((((..((((((.........((((...(((((((.(....).)))))))...))))..))))))..)))))................(....)... (-75.15) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 350 81 43 39 1 tfor:TF1591|5end_surface_antigen_BspA_1706387..1706617_POSITIVE 350 81 43 39 1 tfor:TF1589|5end_surface_antigen_BspA_1703189..1703419_POSITIVE 348 243 201 68 22 tfor:TF0308|5end_hypothetical_protein_333745..333975_POSITIVE 344 90 47 65 20 tfor:TF0464|5end_precorrin_methylase_480211..480441_POSITIVE 341 96 51 167 123 tfor:TF2154|5end_conserved_hypothetical_protein_2329153..2329383_POSITIVE 336 78 36 153 107 tfor:TF2092|5end_ribonuclease_III_2260949..2261179_POSITIVE 333 80 46 179 137 tfor:TF0250|5end_glycosyltransferase_Family_2_protein_279176..279406_POSITIVE 331 90 41 90 28 tfor:TF1413|5end_possible_transmembrane_protein_1493357..1493587_POSITIVE 330 77 41 189 139 tfor:TF2947|5end_isochorismate_synthase_3153633..3153863_POSITIVE 330 77 46 198 154 tfor:TF1264|5end_possible_transposase_1351290..1351520_POSITIVE 329 245 202 229 186 tfor:TF0218|5end_translation_initiation_factor_3_(IF-3)_243182..243412_POSITIVE 324 74 34 74 16 tfor:TF0228|5end_probable_integral_outer_membrane_protein_253851..254081_POSITIVE 324 81 47 157 119 tfor:TF0215|5end_tRNA/rRNA_methyltransferase,_TrmH_family_241463..241693_POSITIVE 323 248 201 71 28 tfor:TF1931|5end_ATPase/GTPase_2078123..2078353_POSITIVE 323 77 40 199 164 tfor:TF1850|5end_Na+/H+-exchanging_protein_1998542..1998772_POSITIVE 321 74 40 35 4 tfor:TF0762|5end_chromate_transport_protein_809124..809354_POSITIVE 317 75 31 193 145 tfor:TF1808|5end_DNA_processing_protein_subunit_A_1949356..1949586_POSITIVE 316 74 33 231 179 tfor:TF3006|5end_response_regulator,_transcriptional_regulator_RprY_3226360..3226590_POSITIVE 316 99 57 44 2 tfor:TF2446|5end_riboflavin-specific_deaminase_2622370..2622600_POSITIVE 316 74 42 128 94 tfor:TF2351|5end_acetate_kinase_2515480..2515710_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 360 83 44 59 23 tfor:TF2985|3end_glycosyltransferase_protein_3201646..3201796_POSITIVE 344 90 47 65 20 tfor:TF0463|3end_precorrin-6Y_C5,15-methyltransferase_480291..480441_POSITIVE 341 96 51 106 62 tfor:TF2153|3end_6-phosphofructokinase_2329172..2329322_POSITIVE 336 78 36 147 101 tfor:TF2091|3end_3-oxoacyl-acyl-carrier-protein_synthase_2261023..2261173_POSITIVE 323 248 201 71 28 tfor:TF1930|3end_two-component_response_regulator_2078203..2078353_POSITIVE 321 237 199 149 112 tfor:TF0217|3end_50S_ribosomal_protein_L35_243194..243344_POSITIVE 312 89 44 86 32 tfor:TF2003|3end_dihydrofolate_reductase_2156427..2156577_POSITIVE 308 242 201 82 40 tfor:TF0636|3end_beta-galactosidase_673284..673434_POSITIVE 305 339 293 70 31 tfor:TF0276|3end_hypothetical_protein_300982..301132_POSITIVE 302 76 35 127 80 tfor:TF2654|3end_arginyl-tRNA_synthetase_2824559..2824709_POSITIVE 300 75 31 131 81 tfor:TF2635|3end_ABC_transporter,_ATP-binding_protein/permease_component_2806101..2806251_POSITIVE 300 87 43 150 97 tfor:TF1813|3end_peptide_methionine_sulfoxide_reductase_1955293..1955443_POSITIVE 298 75 32 70 18 tfor:TF2834|3end_cardiolipin_synthase_3027496..3027646_POSITIVE 293 80 45 66 19 tfor:TF2449|3end_undecaprenyl_diphosphate_synthase_2626541..2626691_POSITIVE 292 87 46 42 1 tfor:TF0427|3end_methylmalonyl-CoA_mutase,_alpha_subunit_447868..448018_POSITIVE 291 81 46 132 94 tfor:TF1443|3end_hypothetical_protein_1528203..1528353_POSITIVE 290 100 52 52 8 tfor:TF2558|3end_50S_ribosomal_protein_L22_2737967..2738117_POSITIVE 290 69 27 128 76 tfor:TF0086|3end_ABC_transporter,_ATP-binding_protein_93254..93404_POSITIVE 288 79 41 103 56 tfor:TF1897|3end_conserved_hypothetical_protein;_possible_aminopeptidase_2052107..2052257_POSITIVE 288 140 95 128 86 tfor:TF0200|3end_2-nitropropane_dioxygenase_226082..226232_POSITIVE