Origin IGS: taacctaatattaacgttgagattgcgtaagataacattccgttaacatgaacattcaccctccatttatacctttgccgaagtttttttaacagataaaattcagaacag .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ctgttctgaattttatctgttaaaaaaacttcggcaaaggtataaatggagggtgaatgttcatgttaacggaatgttatcttacgcaatctcaacgttaatattaggtta Mask Tandem Repeat Region ================================================ taacctaatattaacgttgagattgcgtaagataacattccgttaacatgaacattcaccctccatttatacctttgccgaagtttttttaacagataaaattcagaacag Find is-nt database================================================ Query_seq: TF2752:TF2753|TF2752:TF2753:endonuclease III:zinc protease:->->:2937572..2937682 111 taacctaatattaacgttgagattgcgtaagataacattccgttaacatgaacattcaccctccatttatacctttgccgaagtttttttaacagataaaattcagaacag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF2752:TF2753|TF2752:TF2753:endonuclease III:zinc protease:->->:2937572..2937682 111 taacctaatattaacgttgagattgcgtaagataacattccgttaacatgaacattcaccctccatttatacctttgccgaagtttttttaacagataaaattcagaacag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF2752:TF2753|TF2752:TF2753:endonuclease III:zinc protease:->->:2937572..2937682 111 taacctaatattaacgttgagattgcgtaagataacattccgttaacatgaacattcaccctccatttatacctttgccgaagtttttttaacagataaaattcagaacag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taacctaatattaacgttgagattgcgtaagataacattccgttaacatgaacattcaccctccatttatacctttgccgaagtttttttaacagataaaattcagaacag Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: - Start: 3 End: 95 .. G L I L T S I A Y S L M G N V H V N V R W K Y R Q R L K K L M ................ taacctaatattaacgttgagattgcgtaagataacattccgttaacatgaacattcaccctccatttatacctttgccgaagtttttttaacagataaaattcagaacag 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================================================ taacctaatattaacgttgagattgcgtaagataacattccgttaacatgaacattcaccctccatttatacctttgccgaagtttttttaacagataaaattcagaacag Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF2752:TF2753|TF2752:TF2753:endonuclease III:zinc protease:->->:2937572..2937682 111 taacctaatattaacgttgagattgcgtaagataacattccgttaacatgaacattcaccctccatttatacctttgccgaagtttttttaacagataaaattcagaacag Intra-Species Hit: Count: 1 Min: 1 Max: 111 Len: 111 Subject: tfor_TF2752_TF2753|endonuclease III:zinc protease|POSITIVE:POSITIVE|[2937572,2937682]|111 HSP 1 e-value: 2.0E-44 bit: 178.0 Len: 111 Query Start:1 Query End:111 Subject Strand: POSITIVE Subject Start: 1 Subject End: 111 taacctaatattaacgttgagattgcgtaagataacattccgttaacatgaacattcaccctccatttatacctttgccgaagnnnnnnnaacagataaaattcagaacag taacctaatattaacgttgagattgcgtaagataacattccgttaacatgaacattcaccctccatttatacctttgccgaagtttttttaacagataaaattcagaacag Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAACCUAAUAUUAACGUUGAGAUUGCGUAAGAUAACAUUCCGUUAACAUGAACAUUCACCCUCCAUUUAUACCUUUGCCGAAGUUUUUUUAACAGAUAAAAUUCAGAACAG ...............(((((((..((......((((.....))))...(((....)))........................))..))))))).................. ( -8.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUGUUCUGAAUUUUAUCUGUUAAAAAAACUUCGGCAAAGGUAUAAAUGGAGGGUGAAUGUUCAUGUUAACGGAAUGUUAUCUUACGCAAUCUCAACGUUAAUAUUAGGUUA .......(((((((((((.........((((......)))).........))))))).)))).((((((((((.(((........))).))....))))))))........ (-14.07) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 274 57 15 64 17 tfor:TF0496|5end_conserved_hypothetical_protein_522332..522562_POSITIVE 269 79 41 73 40 tfor:TF1548|5end_thiophene_and_furan_oxidation_protein_1652501..1652731_POSITIVE 258 66 23 51 15 tfor:TF1547|5end_conserved_hypothetical_protein_1651459..1651689_POSITIVE 256 78 31 177 135 tfor:TF0382|5end_transcription_termination_factor_403175..403405_POSITIVE 251 79 36 119 76 tfor:TF1622|5end_conserved_hypothetical_protein_1736393..1736623_POSITIVE 248 73 32 71 30 tfor:TF3026|5end_conserved_hypothetical_protein_3249137..3249367_POSITIVE 244 54 11 47 12 tfor:TF0703|5end_conserved_hypothetical_protein_747252..747482_POSITIVE 242 80 32 163 115 tfor:TF1260|5end_chaperone_protein_DnaJ_1345325..1345555_POSITIVE 239 60 15 146 103 tfor:TF3105|5end_hypothetical_protein_3338068..3338298_POSITIVE 238 43 6 147 106 tfor:TF0288|5end_conserved_hypothetical_protein_317474..317704_POSITIVE 237 96 60 166 120 tfor:TF2895|5end_hypothetical_protein_3083936..3084166_POSITIVE 234 70 24 204 165 tfor:TF2295|5end_hypothetical_protein_2448164..2448394_POSITIVE 234 70 24 52 13 tfor:TF2294|5end_hypothetical_protein_2448012..2448242_POSITIVE 233 88 41 129 87 tfor:TF2043|5end_fructokinase_2202267..2202497_POSITIVE 232 80 40 150 112 tfor:TF2880|5end_phenylalanyl-tRNA_synthetase,_beta_subunit_3069052..3069282_POSITIVE 231 84 41 155 114 tfor:TF2489|5end_hypothetical_protein_2664418..2664648_POSITIVE 230 82 47 40 5 tfor:TF0763|5end_chromate_transport_protein_809675..809905_POSITIVE 225 80 32 106 49 tfor:TF0296|5end_hypothetical_protein_321941..322171_POSITIVE 223 88 41 208 167 tfor:TF2801|5end_outer_membrane_protein,_TonB_dependent_receptor_2986285..2986515_POSITIVE 222 79 36 230 197 tfor:TF1694|5end_conserved_hypothetical_protein_1812493..1812723_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 275 78 37 94 57 tfor:TF2366|3end_conserved_hypothetical_protein_2531892..2532042_POSITIVE 258 66 23 58 22 tfor:TF1545|3end_conserved_hypothetical_protein_1651546..1651696_POSITIVE 251 79 36 119 76 tfor:TF1621|3end_DNA_replication_and_repair_protein_RecF_1736473..1736623_POSITIVE 247 83 41 66 30 tfor:TF1588|3end_hypothetical_protein_1702560..1702710_POSITIVE 238 43 6 60 19 tfor:TF0287|3end_peptidase,_M23_family_317467..317617_POSITIVE 234 70 24 43 4 tfor:TF2293|3end_hypothetical_protein_2448083..2448233_POSITIVE 233 88 41 138 96 tfor:TF2042|3end_sugar_phosphate_isomerase,_polysialic_acid_capsule_expression_protein_2202356..2202506_POSITIVE 231 84 41 135 94 tfor:TF2488|3end_hypothetical_protein_2664478..2664628_POSITIVE 230 82 47 40 5 tfor:TF0762|3end_chromate_transport_protein_809755..809905_POSITIVE 224 88 42 89 43 tfor:TF1983|3end_conserved_hypothetical_protein_2135000..2135150_POSITIVE 222 44 14 61 31 tfor:TF3104|3end_outer_membrane_protein,_TonB_dependent_receptor_3337450..3337600_POSITIVE 218 80 36 101 55 tfor:TF3133|3end_conserved_hypothetical_protein_3369913..3370063_POSITIVE 218 107 65 140 94 tfor:TF0595|3end_hypothetical_protein_628073..628223_POSITIVE 216 50 15 144 108 tfor:TF2874|3end_conserved_hypothetical_protein_3065224..3065374_POSITIVE 216 88 41 52 8 tfor:TF1259|3end_hypothetical_protein_1345204..1345354_POSITIVE 215 80 36 81 36 tfor:TF0145|3end_glutamine_synthetase_154718..154868_POSITIVE 214 77 38 149 105 tfor:TF2221|3end_CTn_excision_protein_2394229..2394379_POSITIVE 214 75 36 37 1 tfor:TF1592|3end_hypothetical_protein_1708557..1708707_POSITIVE 214 40 12 114 85 tfor:TF0471|3end_conserved_hypothetical_protein_487886..488036_POSITIVE 213 75 50 84 57 tfor:TF1760|3end_guanosine-3',5'-bis(diphosphate)_3'-pyrophosphohydrolase_1899413..1899563_POSITIVE