Origin IGS: tgaaatagcaggtgtggactctgaaaatttatgcctttgtagtctcaactaatgaatgcaactttttttaaatttgcattcaagtattgcatttgtgcgttgaaacgatacatttttatttatccgttttaat .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 attaaaacggataaataaaaatgtatcgtttcaacgcacaaatgcaatacttgaatgcaaatttaaaaaaagttgcattcattagttgagactacaaaggcataaattttcagagtccacacctgctatttca Mask Tandem Repeat Region ================================================ tgaaatagcaggtgtggactctgaaaatttatgcctttgtagtctcaactaatgaatgcaactttttttaaatttgcattcaagtattgcatttgtgcgttgaaacgatacatttttatttatccgttttaat Find is-nt database================================================ Query_seq: TF2871:TF2872|TF2871:TF2872:hypothetical protein:hypothetical protein:->->:3062775..3062907 133 tgaaatagcaggtgtggactctgaaaatttatgcctttgtagtctcaactaatgaatgcaactttttttaaatttgcattcaagtattgcatttgtgcgttgaaacgatacatttttatttatccgttttaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF2871:TF2872|TF2871:TF2872:hypothetical protein:hypothetical protein:->->:3062775..3062907 133 tgaaatagcaggtgtggactctgaaaatttatgcctttgtagtctcaactaatgaatgcaactttttttaaatttgcattcaagtattgcatttgtgcgttgaaacgatacatttttatttatccgttttaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF2871:TF2872|TF2871:TF2872:hypothetical protein:hypothetical protein:->->:3062775..3062907 133 tgaaatagcaggtgtggactctgaaaatttatgcctttgtagtctcaactaatgaatgcaactttttttaaatttgcattcaagtattgcatttgtgcgttgaaacgatacatttttatttatccgttttaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgaaatagcaggtgtggactctgaaaatttatgcctttgtagtctcaactaatgaatgcaactttttttaaatttgcattcaagtattgcatttgtgcgttgaaacgatacatttttatttatccgttttaat Predict ORF larger than 30AA ================================================ tgaaatagcaggtgtggactctgaaaatttatgcctttgtagtctcaactaatgaatgcaactttttttaaatttgcattcaagtattgcatttgtgcgttgaaacgatacatttttatttatccgttttaat 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================================================ tgaaatagcaggtgtggactctgaaaatttatgcctttgtagtctcaactaatgaatgcaactttttttaaatttgcattcaagtattgcatttgtgcgttgaaacgatacatttttatttatccgttttaat Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 79 HP_score: -9.5 Tail_Score: -3.34895 Start: 53 End: 82 Full_Region: cacaaatgcaatact tgaatgcaaattt aaaa aaagttgcattca ttagttgagactaca ....................................................tgaatgcaaatttaaaaaaagttgcattca................................................... Find igs database================================================ Query_seq: TF2871:TF2872|TF2871:TF2872:hypothetical protein:hypothetical protein:->->:3062775..3062907 133 tgaaatagcaggtgtggactctgaaaatttatgcctttgtagtctcaactaatgaatgcaactttttttaaatttgcattcaagtattgcatttgtgcgttgaaacgatacatttttatttatccgttttaat Intra-Species Hit: Count: 1 Min: 1 Max: 133 Len: 133 Subject: tfor_TF2871_TF2872|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[3062775,3062907]|133 HSP 1 e-value: 2.0E-57 bit: 222.0 Len: 133 Query Start:1 Query End:133 Subject Strand: POSITIVE Subject Start: 1 Subject End: 133 tgaaatagcaggtgtggactctgaaaatttatgcctttgtagtctcaactaatgaatgcaacnnnnnnnaaatttgcattcaagtattgcatttgtgcgttgaaacgatacatttttatttatccgttttaat tgaaatagcaggtgtggactctgaaaatttatgcctttgtagtctcaactaatgaatgcaactttttttaaatttgcattcaagtattgcatttgtgcgttgaaacgatacatttttatttatccgttttaat Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAAAUAGCAGGUGUGGACUCUGAAAAUUUAUGCCUUUGUAGUCUCAACUAAUGAAUGCAACUUUUUUUAAAUUUGCAUUCAAGUAUUGCAUUUGUGCGUUGAAACGAUACAUUUUUAUUUAUCCGUUUUAAU .......((((((((.((((..(((..........)))..))))...(((..(((((((((.(((....))).))))))))))))...))))))))..((((((((((((.((....)).))).))))))))) (-27.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUAAAACGGAUAAAUAAAAAUGUAUCGUUUCAACGCACAAAUGCAAUACUUGAAUGCAAAUUUAAAAAAAGUUGCAUUCAUUAGUUGAGACUACAAAGGCAUAAAUUUUCAGAGUCCACACCUGCUAUUUCA ........((((....((((((((...(((((((((((....)))......(((((((((.(((....))).)))))))))...)))))))).......))))...))))....))))............... (-24.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 298 110 82 141 111 tfor:TF2394|5end_integrase/recombinase_XerD_2565608..2565838_POSITIVE 288 110 63 101 54 tfor:TF0172|5end_transposase_element_184883..185113_POSITIVE 253 130 89 70 35 tfor:TF3135|5end_hypothetical_protein_3369821..3370051_POSITIVE 252 44 8 222 191 tfor:TF1438|5end_hypothetical_protein_1522244..1522474_POSITIVE 252 128 87 36 1 tfor:TF0461|5end_ATP:cob(I)alamin_adenosyltransferase_476990..477220_POSITIVE 249 47 1 99 46 tfor:TF1324|5end_conserved_hypothetical_protein_1403462..1403692_POSITIVE 247 111 87 42 20 tfor:TF0636|5end_beta-galactosidase_670697..670927_POSITIVE 246 60 12 96 57 tfor:TF1868|5end_conserved_hypothetical_protein;_possible_transposase_2022598..2022828_POSITIVE 245 127 82 215 162 tfor:TF0495|5end_conserved_hypothetical_protein;_possible_S-layer_related_protein_precursor_520862..521092_POSITIVE 241 47 4 119 74 tfor:TF0343|5end_hypothetical_protein_366502..366732_POSITIVE 240 58 11 200 149 tfor:TF0762|5end_chromate_transport_protein_809124..809354_POSITIVE 235 41 9 199 167 tfor:TF1497|5end_GTP-binding_protein,_Era/ThdF_family_1596129..1596359_POSITIVE 234 107 72 202 161 tfor:TF2820|5end_argininosuccinate_synthetase_3009876..3010106_POSITIVE 231 46 2 149 110 tfor:TF2499|5end_possible_thioesterase_family_protein_2673903..2674133_POSITIVE 227 47 8 231 202 tfor:TF1011|5end_cell_division_protein;_rod_shape-determining_protein_1066647..1066877_POSITIVE 225 129 83 79 35 tfor:TF0631|5end_hypothetical_protein_666812..667042_POSITIVE 224 59 11 231 186 tfor:TF2705|5end_conserved_hypothetical_protein;_possible_SufE_Fe/S-cluster-related_protein_2876850..2877080_POSITIVE 224 46 1 220 176 tfor:TF0373|5end_conserved_hypothetical_protein,_yngK-related_391038..391268_POSITIVE 222 130 83 49 2 tfor:TF2081|5end_phosphopantetheine_adenylyltransferase_2248475..2248705_POSITIVE 221 33 2 186 158 tfor:TF2738|5end_30S_ribosomal_protein_S16_2919303..2919533_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 253 130 89 82 47 tfor:TF3133|3end_conserved_hypothetical_protein_3369913..3370063_POSITIVE 252 128 87 36 1 tfor:TF0460|3end_hypothetical_protein_477070..477220_POSITIVE 249 47 1 90 37 tfor:TF1323|3end_metallo-beta-lactamase_superfamily_protein_1403533..1403683_POSITIVE 247 111 87 23 1 tfor:TF0635|3end_glucosylceramidase_precursor_670758..670908_POSITIVE 240 58 11 76 25 tfor:TF0761|3end_conserved_hypothetical_protein_809080..809230_POSITIVE 235 41 9 59 27 tfor:TF1496|3end_tyrosyl-tRNA_synthetase_1596069..1596219_POSITIVE 231 46 2 51 12 tfor:TF2498|3end_electron_transfer_flavoprotein,_alpha_subunit_2673885..2674035_POSITIVE 226 50 1 114 67 tfor:TF1149|3end_conserved_hypothetical_protein;_possible_branched-chain_amino_acid_aminotransferase_1229927..1230077_POSITIVE 222 130 83 49 2 tfor:TF2080|3end_carboxyl-terminal_protease_2248555..2248705_POSITIVE 221 33 2 107 79 tfor:TF2737|3end_conserved_hypothetical_protein;_TPR-repeat-containing_protein_2919304..2919454_POSITIVE 221 119 82 78 29 tfor:TF2467|3end_3-dehydroquinate_dehydratase_II_2646323..2646473_POSITIVE 221 112 82 112 82 tfor:TF1428|3end_conserved_hypothetical_protein_1513996..1514146_POSITIVE 218 95 52 111 69 tfor:TF0666|3end_conserved_hypothetical_protein_710945..711095_POSITIVE 218 129 94 39 3 tfor:TF0630|3end_hypothetical_protein_666852..667002_POSITIVE 216 23 8 151 135 tfor:TF2358|3end_possible_small-conductance_mechanosensitive_channel_2524850..2525000_POSITIVE 216 49 1 84 29 tfor:TF0008|3end_hypothetical_protein_4336..4486_POSITIVE 215 60 15 41 1 tfor:TF2092|3end_ribonuclease_III_2261823..2261973_POSITIVE 209 60 11 100 45 tfor:TF2519|3end_membrane_protein,_metallopeptidase_M23/M37_family_2698997..2699147_POSITIVE 209 110 61 103 46 tfor:TF1004|3end_ABC_transporter,_ATP-binding_protein_1060623..1060773_POSITIVE 207 110 63 105 48 tfor:TF2744|3end_methionyl-tRNA_formyltransferase_2927378..2927528_POSITIVE