Origin IGS: taaagtgtttatgggctttcgcaagaagacatagaggaggattaagcaagtaccggcaaactataacggcagacttgatgggacacttgctatttttattcggactcggtgataagcatacgttgttttaaaaaacagaataacttgtgacatcataaaaaacatcacgcaggatcatttgttttctcgatccgcttttttaaactgcctgcgaaacgagatattttctcgttcgcttta .........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 taaagcgaacgagaaaatatctcgtttcgcaggcagtttaaaaaagcggatcgagaaaacaaatgatcctgcgtgatgttttttatgatgtcacaagttattctgttttttaaaacaacgtatgcttatcaccgagtccgaataaaaatagcaagtgtcccatcaagtctgccgttatagtttgccggtacttgcttaatcctcctctatgtcttcttgcgaaagcccataaacacttta Mask Tandem Repeat Region ================================================ taaagtgtttatgggctttcgcaagaagacatagaggaggattaagcaagtaccggcaaactataacggcagacttgatgggacacttgctatttttattcggactcggtgataagcatacgttgttttaaaaaacagaataacttgtgacatcataaaaaacatcacgcaggatcatttgttttctcgatccgcttttttaaactgcctgcgaaacgagatattttctcgttcgcttta Find is-nt database================================================ Query_seq: TF0075:TF0076|TF0075:TF0076:transcriptional regulator:probable carbohydrate kinase, PfkB family:->->:83179..83418 240 taaagtgtttatgggctttcgcaagaagacatagaggaggattaagcaagtaccggcaaactataacggcagacttgatgggacacttgctatttttattcggactcggtgataagcatacgttgttttaaaaaacagaataacttgtgacatcataaaaaacatcacgcaggatcatttgttttctcgatccgcttttttaaactgcctgcgaaacgagatattttctcgttcgcttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0075:TF0076|TF0075:TF0076:transcriptional regulator:probable carbohydrate kinase, PfkB family:->->:83179..83418 240 taaagtgtttatgggctttcgcaagaagacatagaggaggattaagcaagtaccggcaaactataacggcagacttgatgggacacttgctatttttattcggactcggtgataagcatacgttgttttaaaaaacagaataacttgtgacatcataaaaaacatcacgcaggatcatttgttttctcgatccgcttttttaaactgcctgcgaaacgagatattttctcgttcgcttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0075:TF0076|TF0075:TF0076:transcriptional regulator:probable carbohydrate kinase, PfkB family:->->:83179..83418 240 taaagtgtttatgggctttcgcaagaagacatagaggaggattaagcaagtaccggcaaactataacggcagacttgatgggacacttgctatttttattcggactcggtgataagcatacgttgttttaaaaaacagaataacttgtgacatcataaaaaacatcacgcaggatcatttgttttctcgatccgcttttttaaactgcctgcgaaacgagatattttctcgttcgcttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaagtgtttatgggctttcgcaagaagacatagaggaggattaagcaagtaccggcaaactataacggcagacttgatgggacacttgctatttttattcggactcggtgataagcatacgttgttttaaaaaacagaataacttgtgacatcataaaaaacatcacgcaggatcatttgttttctcgatccgcttttttaaactgcctgcgaaacgagatattttctcgttcgcttta Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: + Start: 140 End: 238 ........................................................................................................................................... M T C D I I K N I T Q D H L F S R S A F L N C L R N E I F S R S L .. Protein_Len: 35 Strand: - Start: 64 End: 168 ............................................................... L P L S S P V S A I K I R V R H Y A Y T T K F F L I V Q S M M F F M M ........................................................................ taaagtgtttatgggctttcgcaagaagacatagaggaggattaagcaagtaccggcaaactataacggcagacttgatgggacacttgctatttttattcggactcggtgataagcatacgttgttttaaaaaacagaataacttgtgacatcataaaaaacatcacgcaggatcatttgttttctcgatccgcttttttaaactgcctgcgaaacgagatattttctcgttcgcttta 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================================================ taaagtgtttatgggctttcgcaagaagacatagaggaggattaagcaagtaccggcaaactataacggcagacttgatgggacacttgctatttttattcggactcggtgataagcatacgttgttttaaaaaacagaataacttgtgacatcataaaaaacatcacgcaggatcatttgttttctcgatccgcttttttaaactgcctgcgaaacgagatattttctcgttcgcttta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF0075:TF0076|TF0075:TF0076:transcriptional regulator:probable carbohydrate kinase, PfkB family:->->:83179..83418 240 taaagtgtttatgggctttcgcaagaagacatagaggaggattaagcaagtaccggcaaactataacggcagacttgatgggacacttgctatttttattcggactcggtgataagcatacgttgttttaaaaaacagaataacttgtgacatcataaaaaacatcacgcaggatcatttgttttctcgatccgcttttttaaactgcctgcgaaacgagatattttctcgttcgcttta Intra-Species Hit: Count: 1 Min: 1 Max: 240 Len: 240 Subject: tfor_TF0075_TF0076|transcriptional regulator:probable carbohydrate kinase, PfkB family|POSITIVE:POSITIVE|[83179,83418]|240 HSP 1 e-value: 1.0E-133 bit: 476.0 Len: 240 Query Start:1 Query End:240 Subject Strand: POSITIVE Subject Start: 1 Subject End: 240 taaagtgtttatgggctttcgcaagaagacatagaggaggattaagcaagtaccggcaaactataacggcagacttgatgggacacttgctatttttattcggactcggtgataagcatacgttgttttaaaaaacagaataacttgtgacatcataaaaaacatcacgcaggatcatttgttttctcgatccgcttttttaaactgcctgcgaaacgagatattttctcgttcgcttta taaagtgtttatgggctttcgcaagaagacatagaggaggattaagcaagtaccggcaaactataacggcagacttgatgggacacttgctatttttattcggactcggtgataagcatacgttgttttaaaaaacagaataacttgtgacatcataaaaaacatcacgcaggatcatttgttttctcgatccgcttttttaaactgcctgcgaaacgagatattttctcgttcgcttta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAGUGUUUAUGGGCUUUCGCAAGAAGACAUAGAGGAGGAUUAAGCAAGUACCGGCAAACUAUAACGGCAGACUUGAUGGGACACUUGCUAUUUUUAUUCGGACUCGGUGAUAAGCAUACGUUGUUUUAAAAAACAGAAUAACUUGUGACAUCAUAAAAAACAUCACGCAGGAUCAUUUGUUUUCUCGAUCCGCUUUUUUAAACUGCCUGCGAAACGAGAUAUUUUCUCGUUCGCUUUA ......(((((.((((..(((..((((((((..(((..((((..(((((((.(((.(((.((........))..))).)))...)))))))......))))...))).(((((...((((.((((((((.......)))))))).))))..))))).......................)))))))))))...))))...))))).....(((((.(((((.....)))))))))).... (-57.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAGCGAACGAGAAAAUAUCUCGUUUCGCAGGCAGUUUAAAAAAGCGGAUCGAGAAAACAAAUGAUCCUGCGUGAUGUUUUUUAUGAUGUCACAAGUUAUUCUGUUUUUUAAAACAACGUAUGCUUAUCACCGAGUCCGAAUAAAAAUAGCAAGUGUCCCAUCAAGUCUGCCGUUAUAGUUUGCCGGUACUUGCUUAAUCCUCCUCUAUGUCUUCUUGCGAAAGCCCAUAAACACUUUA ....((((((((((.....))))).))))).(((.((((.(((((((((((((..........))))))...((((((((......))))))))..........))))))).))))..((((.......((..(((...((.((.....((((((((.((...((((.(((......)))))))..)))))))))))).))...)))..))......))))...)))............. (-55.62) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 406 80 31 148 106 tfor:TF1049|5end_cobyrinic_acid_a,c-diamide_synthase_1110140..1110370_POSITIVE 393 60 12 82 33 tfor:TF0892|5end_conserved_hypothetical_protein_940836..941066_POSITIVE 367 60 11 64 13 tfor:TF0231|5end_conserved_hypothetical_protein_257804..258034_POSITIVE 356 57 11 91 23 tfor:TF0201|5end_permease,_major_facilitator_superfamily_226041..226271_POSITIVE 351 198 162 57 30 tfor:TF0748|5end_ATP-dependent_protease_La_792890..793120_POSITIVE 333 125 81 173 121 tfor:TF2120|5end_holliday_junction_endonuclease_2292108..2292338_POSITIVE 324 90 45 53 14 tfor:TF1734|5end_conserved_hypothetical_protein_1856556..1856786_POSITIVE 322 58 11 83 33 tfor:TF2708|5end_DNA_gyrase_subunit_B_2880164..2880394_POSITIVE 318 89 46 170 121 tfor:TF1105|5end_arylsulfatase_regulator;_Fe-S_oxidoreductase_1172716..1172946_POSITIVE 316 109 66 181 127 tfor:TF1924|5end_prenyltransferase,_UbiA_family_2072857..2073087_POSITIVE 315 109 68 145 95 tfor:TF2079|5end_permease_2245585..2245815_POSITIVE 313 125 81 199 165 tfor:TF0505|5end_4-diphosphocytidyl-2-C-methyl-D-erythritol_kinase_530223..530453_POSITIVE 306 119 71 215 160 tfor:TF1478|5end_membrane_fusion_efflux_protein_1571101..1571331_POSITIVE 304 236 194 176 124 tfor:TF1329|5end_glucose-1-phosphate_thymidyltransferase_1408578..1408808_POSITIVE 301 77 33 58 3 tfor:TF1681|5end_dTDP-4-keto-L-rhamnose_reductase_1794904..1795134_POSITIVE 301 240 204 100 62 tfor:TF0819|5end_phosphoglycerate_mutase_878447..878677_POSITIVE 300 237 191 139 102 tfor:TF3127|5end_acetyltransferase,_possible_GNAT_family_3361627..3361857_POSITIVE 297 47 11 50 8 tfor:TF1876|5end_hypothetical_protein_2029744..2029974_POSITIVE 295 43 5 190 153 tfor:TF3077|5end_tonB-dependent_receptor_HmuY_3305033..3305263_POSITIVE 295 50 3 79 30 tfor:TF2244|5end_possible_mobilization_protein_2419425..2419655_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 406 80 31 145 103 tfor:TF1048|3end_permease_1110217..1110367_POSITIVE 353 70 21 48 1 tfor:TF0230|3end_hydrolase,_haloacid_dehalogenase-like_family_257862..258012_POSITIVE 322 56 12 48 4 tfor:TF2690|3end_possible_permease_2866562..2866712_POSITIVE 311 238 192 138 91 tfor:TF1302|3end_conserved_hypothetical_protein;_possible_tetracycline_resistance_element_1383836..1383986_POSITIVE 309 90 41 113 64 tfor:TF2336|3end_conserved_hypothetical_protein_2498159..2498309_POSITIVE 301 240 204 90 52 tfor:TF0818|3end_bifunctional_protein:__aspartokinase_I;_homoserine_dehydrogenase_878517..878667_POSITIVE 300 237 191 117 80 tfor:TF3126|3end_glycosyltransferase,_group_2_family_3361685..3361835_POSITIVE 295 212 177 142 105 tfor:TF0395|3end_L-lactate_permease_417052..417202_POSITIVE 294 230 181 120 64 tfor:TF0291|3end_triose-phosphate_isomerase_320131..320281_POSITIVE 293 120 73 91 28 tfor:TF1857|3end_conserved_hypothetical_protein_2015168..2015318_POSITIVE 292 70 21 144 93 tfor:TF2433|3end_possible_UDP-2,3-diacylglucosamine_hydrolase_2614043..2614193_POSITIVE 290 76 33 84 47 tfor:TF1337|3end_multidrug_efflux_pump,_BexA_1420915..1421065_POSITIVE 286 57 14 59 13 tfor:TF2527|3end_RNA_polymerase_ECF-type_sigma_factor_2710749..2710899_POSITIVE 286 86 46 44 2 tfor:TF2007|3end_uracil_phosphoribosyltransferase_2159327..2159477_POSITIVE 286 125 86 129 97 tfor:TF0010|3end_conserved_hypothetical_protein_4790..4940_POSITIVE 285 126 87 92 56 tfor:TF1289|3end_ribosomal_protein_L11_methyltransferase_1371233..1371383_POSITIVE 283 90 50 61 22 tfor:TF2793|3end_possible_L-lysine_2,3-aminomutase_2979888..2980038_POSITIVE 282 235 191 59 10 tfor:TF1909|3end_cobalamin_(5`-phosphate)_synthase_2064075..2064225_POSITIVE 281 97 54 67 23 tfor:TF0664|3end_small_protein_B_(SMPB)_709570..709720_POSITIVE 279 50 9 44 1 tfor:TF2243|3end_possible_mobilization_protein_2419470..2419620_POSITIVE