Origin IGS: tgttttggcacaccctcaaagaactataagattttattgggagaggcattgaacacctgagctttttaaaaaagcggtttcaatgcacacatcaaatcaatcttatcatactgaacctacccta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tagggtaggttcagtatgataagattgatttgatgtgtgcattgaaaccgcttttttaaaaagctcaggtgttcaatgcctctcccaataaaatcttatagttctttgagggtgtgccaaaaca Mask Tandem Repeat Region ================================================ tgttttggcacaccctcaaagaactataagattttattgggagaggcattgaacacctgagctttttaaaaaagcggtttcaatgcacacatcaaatcaatcttatcatactgaacctacccta Find is-nt database================================================ Query_seq: TF2413:TF2414|TF2413:TF2414:hypothetical protein:hypothetical protein:->->:2590741..2590864 124 tgttttggcacaccctcaaagaactataagattttattgggagaggcattgaacacctgagctttttaaaaaagcggtttcaatgcacacatcaaatcaatcttatcatactgaacctacccta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF2413:TF2414|TF2413:TF2414:hypothetical protein:hypothetical protein:->->:2590741..2590864 124 tgttttggcacaccctcaaagaactataagattttattgggagaggcattgaacacctgagctttttaaaaaagcggtttcaatgcacacatcaaatcaatcttatcatactgaacctacccta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF2413:TF2414|TF2413:TF2414:hypothetical protein:hypothetical protein:->->:2590741..2590864 124 tgttttggcacaccctcaaagaactataagattttattgggagaggcattgaacacctgagctttttaaaaaagcggtttcaatgcacacatcaaatcaatcttatcatactgaacctacccta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgttttggcacaccctcaaagaactataagattttattgggagaggcattgaacacctgagctttttaaaaaagcggtttcaatgcacacatcaaatcaatcttatcatactgaacctacccta Predict ORF larger than 30AA ================================================ tgttttggcacaccctcaaagaactataagattttattgggagaggcattgaacacctgagctttttaaaaaagcggtttcaatgcacacatcaaatcaatcttatcatactgaacctacccta 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================================================ tgttttggcacaccctcaaagaactataagattttattgggagaggcattgaacacctgagctttttaaaaaagcggtttcaatgcacacatcaaatcaatcttatcatactgaacctacccta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF2413:TF2414|TF2413:TF2414:hypothetical protein:hypothetical protein:->->:2590741..2590864 124 tgttttggcacaccctcaaagaactataagattttattgggagaggcattgaacacctgagctttttaaaaaagcggtttcaatgcacacatcaaatcaatcttatcatactgaacctacccta Intra-Species Hit: Count: 1 Min: 1 Max: 124 Len: 124 Subject: tfor_TF2413_TF2414|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[2590741,2590864]|124 HSP 1 e-value: 1.0E-64 bit: 246.0 Len: 124 Query Start:1 Query End:124 Subject Strand: POSITIVE Subject Start: 1 Subject End: 124 tgttttggcacaccctcaaagaactataagattttattgggagaggcattgaacacctgagctttttaaaaaagcggtttcaatgcacacatcaaatcaatcttatcatactgaacctacccta tgttttggcacaccctcaaagaactataagattttattgggagaggcattgaacacctgagctttttaaaaaagcggtttcaatgcacacatcaaatcaatcttatcatactgaacctacccta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGUUUUGGCACACCCUCAAAGAACUAUAAGAUUUUAUUGGGAGAGGCAUUGAACACCUGAGCUUUUUAAAAAAGCGGUUUCAAUGCACACAUCAAAUCAAUCUUAUCAUACUGAACCUACCCUA ..((((((.......))))))....((((((((...((((.....((((((((.(((...(((((.....)))))))))))))))).....))))...)))))))).................. (-24.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGGGUAGGUUCAGUAUGAUAAGAUUGAUUUGAUGUGUGCAUUGAAACCGCUUUUUUAAAAAGCUCAGGUGUUCAAUGCCUCUCCCAAUAAAAUCUUAUAGUUCUUUGAGGGUGUGCCAAAACA ...((((.(..(((....((((((((...(((..(.(.((((((((((((((((.....)))))...))).))))))))).)...)))...))))))))....))....)..).))))...... (-32.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 308 116 74 205 159 tfor:TF1973|5end_propionyl-CoA_carboxylase,_beta_subunit_2119360..2119590_POSITIVE 265 77 37 53 12 tfor:TF2039|5end_possible_cell-cycle_regulation_histidine_triad_(HIT)_protein_2199318..2199548_POSITIVE 264 59 12 160 106 tfor:TF1466|5end_DNA_gyrase_modulator_1555469..1555699_POSITIVE 260 88 41 229 171 tfor:TF3068|5end_flavodoxin_A_3292812..3293042_POSITIVE 256 78 35 157 101 tfor:TF0072|5end_hypothetical_protein_80769..80999_POSITIVE 255 60 34 48 12 tfor:TF0432|5end_3-deoxy-manno-octulosonate_cytidylyltransferase_452531..452761_POSITIVE 244 48 1 189 144 tfor:TF0476|5end_conserved_hypothetical_protein_494944..495174_POSITIVE 243 48 1 205 174 tfor:TF3007|5end_conserved_hypothetical_protein_3227256..3227486_POSITIVE 240 51 13 221 180 tfor:TF1072|5end_conserved_hypothetical_protein_1142391..1142621_POSITIVE 235 90 43 176 121 tfor:TF1297|5end_hypothetical_protein_1379024..1379254_POSITIVE 234 63 30 129 97 tfor:TF0525|5end_conserved_hypothetical_protein_549265..549495_POSITIVE 233 60 33 134 101 tfor:TF2938|5end_conserved_hypothetical_protein;_possible_translocase_secE_subunit_3140563..3140793_POSITIVE 232 62 37 142 116 tfor:TF1274|5end_hypothetical_protein_1357621..1357851_POSITIVE 231 103 74 42 6 tfor:TF1300|5end_conserved_hypothetical_protein_1382389..1382619_POSITIVE 229 77 31 55 6 tfor:TF0866|5end_naphthoate_synthase_916725..916955_POSITIVE 228 93 60 189 146 tfor:TF2929|5end_conserved_hypothetical_protein_3131484..3131714_POSITIVE 228 114 73 94 48 tfor:TF2876|5end_cytosine_deaminase_3065144..3065374_POSITIVE 228 60 13 99 49 tfor:TF1706|5end_conserved_hypothetical_protein_1828166..1828396_POSITIVE 228 47 1 58 23 tfor:TF1454|5end_sugar_phosphate_epimerase/isomerase_1539696..1539926_POSITIVE 227 64 37 92 65 tfor:TF3057|5end_conserved_hypothetical_protein_3280358..3280588_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 341 86 46 45 5 tfor:TF2413|3end_hypothetical_protein_2590680..2590830_POSITIVE 250 17 1 54 38 tfor:TF1416|3end_outer_membrane_protein_1499413..1499563_POSITIVE 249 53 12 146 101 tfor:TF1465|3end_modulator_of_DNA_gyrase_1555544..1555694_POSITIVE 234 63 30 116 84 tfor:TF0524|3end_possible_cation_efflux_pump_(multidrug_resistance_protein)_549332..549482_POSITIVE 231 50 6 131 92 tfor:TF2953|3end_possible_TonB-dependent_outer_membrane_receptor_3161501..3161651_POSITIVE 231 79 31 76 32 tfor:TF2895|3end_hypothetical_protein_3084192..3084342_POSITIVE 229 77 31 55 6 tfor:TF0865|3end_chloromuconate_cycloisomerase_916805..916955_POSITIVE 228 93 60 64 21 tfor:TF2928|3end_predicted_DNA_repair__protein_3131439..3131589_POSITIVE 228 114 73 94 48 tfor:TF2874|3end_conserved_hypothetical_protein_3065224..3065374_POSITIVE 227 64 37 71 44 tfor:TF3056|3end_conserved_hypothetical_protein_3280417..3280567_POSITIVE 226 48 2 31 1 tfor:TF3006|3end_response_regulator,_transcriptional_regulator_RprY_3227162..3227312_POSITIVE 223 53 14 53 14 tfor:TF1001|3end_penicillin-binding_protein_1A_1056600..1056750_POSITIVE 219 20 1 52 30 tfor:TF2765|3end_subtilisin-like_serine_protease_2951460..2951610_POSITIVE 218 118 71 63 5 tfor:TF1757|3end_chromosome_partitioning_protein_1894825..1894975_POSITIVE 218 46 1 98 49 tfor:TF1627|3end_guanylate_kinase_1740704..1740854_POSITIVE 217 80 36 142 90 tfor:TF2463|3end_anti-sigma_factor_2643064..2643214_POSITIVE 216 87 44 93 57 tfor:TF2129|3end_possible_3-oxoacyl-(acyl-carrier-protein)_synthase_2306569..2306719_POSITIVE 213 86 41 93 44 tfor:TF3127|3end_acetyltransferase,_possible_GNAT_family_3362234..3362384_POSITIVE 213 77 38 84 41 tfor:TF2205|3end_conserved_hypothetical_protein;_possible_transcriptional_regulator_2380010..2380160_POSITIVE 211 55 13 115 59 tfor:TF1474|3end_6-phosphogluconolactonase_1568123..1568273_POSITIVE