Origin IGS: gaatccgccctgtcgggctgcgattcatttcatgcggctaagttagtgaactttcagcataacataaaaaagccaatgtgcgattttgcgcacattgacttttattaactaatatcatgctccgttattcgacggggttgcaatca .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgattgcaaccccgtcgaataacggagcatgatattagttaataaaagtcaatgtgcgcaaaatcgcacattggcttttttatgttatgctgaaagttcactaacttagccgcatgaaatgaatcgcagcccgacagggcggattc Mask Tandem Repeat Region ================================================ gaatccgccctgtcgggctgcgattcatttcatgcggctaagttagtgaactttcagcataacataaaaaagccaatgtgcgattttgcgcacattgacttttattaactaatatcatgctccgttattcgacggggttgcaatca Find is-nt database================================================ Query_seq: TF2696:TF2697|TF2696:TF2697:oxidoreductase, short chain dehydrogenase/reductase family:small heat shock protein:->->:2871672..2871817 146 gaatccgccctgtcgggctgcgattcatttcatgcggctaagttagtgaactttcagcataacataaaaaagccaatgtgcgattttgcgcacattgacttttattaactaatatcatgctccgttattcgacggggttgcaatca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF2696:TF2697|TF2696:TF2697:oxidoreductase, short chain dehydrogenase/reductase family:small heat shock protein:->->:2871672..2871817 146 gaatccgccctgtcgggctgcgattcatttcatgcggctaagttagtgaactttcagcataacataaaaaagccaatgtgcgattttgcgcacattgacttttattaactaatatcatgctccgttattcgacggggttgcaatca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF2696:TF2697|TF2696:TF2697:oxidoreductase, short chain dehydrogenase/reductase family:small heat shock protein:->->:2871672..2871817 146 gaatccgccctgtcgggctgcgattcatttcatgcggctaagttagtgaactttcagcataacataaaaaagccaatgtgcgattttgcgcacattgacttttattaactaatatcatgctccgttattcgacggggttgcaatca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gaatccgccctgtcgggctgcgattcatttcatgcggctaagttagtgaactttcagcataacataaaaaagccaatgtgcgattttgcgcacattgacttttattaactaatatcatgctccgttattcgacggggttgcaatca Predict ORF larger than 30AA ================================================ Protein_Len: 32 Strand: + Start: 10 End: 105 ......... M S G C D S F H A A K L V N F Q H N I K K P M C D F A H I D F Y ......................................... gaatccgccctgtcgggctgcgattcatttcatgcggctaagttagtgaactttcagcataacataaaaaagccaatgtgcgattttgcgcacattgacttttattaactaatatcatgctccgttattcgacggggttgcaatca 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================================================ gaatccgccctgtcgggctgcgattcatttcatgcggctaagttagtgaactttcagcataacataaaaaagccaatgtgcgattttgcgcacattgacttttattaactaatatcatgctccgttattcgacggggttgcaatca Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 87 HP_score: -12.4 Tail_Score: -3.27653 Start: 65 End: 107 Full_Region: gagcatgatattagt taataaaagtcaatgtgcg caaaat cgcacattggctttttta tgttatgctgaaagt ................................................................taataaaagtcaatgtgcgcaaaatcgcacattggctttttta....................................... TransTerm Strand: - Conf: 100 HP_score: -12.1 Tail_Score: -5.5208 Start: 72 End: 99 Full_Region: tattagttaataaaa gtcaatgtgcg caaaat cgcacattggc ttttttatgttatgc .......................................................................gtcaatgtgcgcaaaatcgcacattggc............................................... Find igs database================================================ Query_seq: TF2696:TF2697|TF2696:TF2697:oxidoreductase, short chain dehydrogenase/reductase family:small heat shock protein:->->:2871672..2871817 146 gaatccgccctgtcgggctgcgattcatttcatgcggctaagttagtgaactttcagcataacataaaaaagccaatgtgcgattttgcgcacattgacttttattaactaatatcatgctccgttattcgacggggttgcaatca Intra-Species Hit: Count: 1 Min: 1 Max: 146 Len: 146 Subject: tfor_TF2696_TF2697|oxidoreductase, short chain dehydrogenase/reductase family:small heat shock protein|POSITIVE:POSITIVE|[2871672,2871817]|146 HSP 1 e-value: 1.0E-77 bit: 289.0 Len: 146 Query Start:1 Query End:146 Subject Strand: POSITIVE Subject Start: 1 Subject End: 146 gaatccgccctgtcgggctgcgattcatttcatgcggctaagttagtgaactttcagcataacataaaaaagccaatgtgcgattttgcgcacattgacttttattaactaatatcatgctccgttattcgacggggttgcaatca gaatccgccctgtcgggctgcgattcatttcatgcggctaagttagtgaactttcagcataacataaaaaagccaatgtgcgattttgcgcacattgacttttattaactaatatcatgctccgttattcgacggggttgcaatca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAAUCCGCCCUGUCGGGCUGCGAUUCAUUUCAUGCGGCUAAGUUAGUGAACUUUCAGCAUAACAUAAAAAAGCCAAUGUGCGAUUUUGCGCACAUUGACUUUUAUUAACUAAUAUCAUGCUCCGUUAUUCGACGGGGUUGCAAUCA ((((((((((....)))).).)))))......(((.((((((((....)))))..))).........(((((.(((((((((......))))))))).)))))...............((((((((....)))))))).))).... (-46.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAUUGCAACCCCGUCGAAUAACGGAGCAUGAUAUUAGUUAAUAAAAGUCAAUGUGCGCAAAAUCGCACAUUGGCUUUUUUAUGUUAUGCUGAAAGUUCACUAACUUAGCCGCAUGAAAUGAAUCGCAGCCCGACAGGGCGGAUUC ....(((....((((......))))((((((((((........(((((((((((((((......)))))))))))))))..))))))))))..(((((....)))))....)))......(((((...((((....)))).))))) (-48.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 435 47 3 41 3 tfor:TF0150|5end_peptidyl-arginyl_deiminase_160077..160307_POSITIVE 391 49 6 108 50 tfor:TF0096|5end_tRNA-guanine_transglycosylase_(queuine_tRNA-ribosyltransferase)_106971..107201_POSITIVE 380 44 3 164 118 tfor:TF0759|5end_heat_shock_protein_15,_RNA-binding_domain_S4_805870..806100_POSITIVE 346 49 7 231 179 tfor:TF1037|5end_iron_(III)_ABC_transporter,_ATP-binding_protein_1098194..1098424_POSITIVE 345 39 1 59 1 tfor:TF2477|5end_phosphatase_2654229..2654459_POSITIVE 344 41 2 201 154 tfor:TF1822|5end_outer_membrane_lipoprotein_silC_precursor_1967599..1967829_POSITIVE 339 48 4 213 166 tfor:TF0971|5end_conserved_hypothetical_protein_1021355..1021585_POSITIVE 338 46 4 195 151 tfor:TF0949|5end_conserved_hypothetical_protein_993863..994093_POSITIVE 329 40 4 211 171 tfor:TF3141|5end_NADH:_ubiquinone_oxidoreductase,_subunit_A_3374667..3374897_POSITIVE 329 40 4 54 11 tfor:TF0304|5end_peptidyl-prolyl_cis-trans_isomerase_329567..329797_POSITIVE 325 38 4 199 152 tfor:TF2654|5end_arginyl-tRNA_synthetase_2822692..2822922_POSITIVE 324 46 6 35 1 tfor:TF2922|5end_surface_antigen_BspA_3119122..3119352_POSITIVE 322 37 5 200 161 tfor:TF2333|5end_signal_peptidase_I_2492560..2492790_POSITIVE 321 50 6 70 22 tfor:TF2773|5end_S-adenosylmethionine_tRNA_ribosyltransferase_2958117..2958347_POSITIVE 321 48 3 150 109 tfor:TF2455|5end_conserved_hypothetical_protein;_possible_membrane_protein_2631959..2632189_POSITIVE 314 42 6 227 184 tfor:TF0997|5end_conserved_hypothetical_protein_1051475..1051705_POSITIVE 311 39 3 115 66 tfor:TF2487|5end_transposase_2663010..2663240_POSITIVE 311 47 9 165 128 tfor:TF2082|5end_DNA_topoisomerase_IV,_subunit_B_2248965..2249195_POSITIVE 311 50 4 124 75 tfor:TF1728|5end_cell_division_ABC_transporter,_ATP-binding_protein_FtsE_1852537..1852767_POSITIVE 309 43 1 112 71 tfor:TF3123|5end_dTDP-4-dehydrorhamnose_3,5-epimerase_3357775..3358005_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 435 47 3 41 3 tfor:TF0148|3end_conserved_hypothetical_protein_160157..160307_POSITIVE 345 37 3 54 13 tfor:TF2953|3end_possible_TonB-dependent_outer_membrane_receptor_3161501..3161651_POSITIVE 322 50 4 95 24 tfor:TF1917|3end_hypothetical_protein_2070244..2070394_POSITIVE 321 50 6 52 4 tfor:TF2772|3end_tRNA_pseudouridine_synthase_B_2958179..2958329_POSITIVE 321 48 3 136 95 tfor:TF2454|3end_D-alanyl-D-alanine_dipeptidase_2632025..2632175_POSITIVE 311 47 9 151 114 tfor:TF2081|3end_phosphopantetheine_adenylyltransferase_2249031..2249181_POSITIVE 311 50 4 95 46 tfor:TF1727|3end_hypothetical_protein_1852588..1852738_POSITIVE 308 39 1 88 22 tfor:TF0385|3end_conserved_hypothetical_protein_406980..407130_POSITIVE 306 50 6 66 28 tfor:TF1173|3end_ABC_transporter,_permease_component_1256651..1256801_POSITIVE 302 50 7 72 25 tfor:TF2342|3end_glutathione_peroxidase_2506639..2506789_POSITIVE 301 36 2 144 103 tfor:TF0350|3end_hypothetical_protein_371101..371251_POSITIVE 299 37 5 44 5 tfor:TF0776|3end_ABC_transporter,_permease_component_826173..826323_POSITIVE 298 49 1 140 76 tfor:TF0416|3end_possible_ATP-binding_protein_433846..433996_POSITIVE 298 49 1 140 76 tfor:TF0025|3end_hypothetical_protein_21912..22062_POSITIVE 297 50 7 102 62 tfor:TF2171|3end_hypothetical_protein_2345792..2345942_POSITIVE 297 49 4 44 13 tfor:TF0083|3end_outer_membrane_efflux_protein_90643..90793_POSITIVE 296 37 5 40 15 tfor:TF2205|3end_conserved_hypothetical_protein;_possible_transcriptional_regulator_2380010..2380160_POSITIVE 295 36 5 97 64 tfor:TF1944|3end_conserved_hypothetical_protein_2093309..2093459_POSITIVE 291 46 3 91 52 tfor:TF1182|3end_hypothetical_protein_1268938..1269088_POSITIVE 291 59 11 151 108 tfor:TF0241|3end_UDP-N-acetyl_glucosamine_-2-epimerase_272495..272645_POSITIVE