Origin IGS: tgtctgttgttcctatccaaggtttcggcttaaggtccgccggaaaaaattttgcttattctagcccgaccatcgtccattaaaaagcgacaaataaaaaatcagcgccctaatccgttaagacgctgattttgactaaaataaacaagttagttttttgacactttattggtcgctttgttca .........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 tgaacaaagcgaccaataaagtgtcaaaaaactaacttgtttattttagtcaaaatcagcgtcttaacggattagggcgctgattttttatttgtcgctttttaatggacgatggtcgggctagaataagcaaaattttttccggcggaccttaagccgaaaccttggataggaacaacagaca Mask Tandem Repeat Region ================================================ tgtctgttgttcctatccaaggtttcggcttaaggtccgccggaaaaaattttgcttattctagcccgaccatcgtccattaaaaagcgacaaataaaaaatcagcgccctaatccgttaagacgctgattttgactaaaataaacaagttagttttttgacactttattggtcgctttgttca Find is-nt database================================================ Query_seq: AA01276:AA01277|AA01276:AA01277:heptosyltransferase III:aspartate ammonia-lyase:->->:865905..866088 184 tgtctgttgttcctatccaaggtttcggcttaaggtccgccggaaaaaattttgcttattctagcccgaccatcgtccattaaaaagcgacaaataaaaaatcagcgccctaatccgttaagacgctgattttgactaaaataaacaagttagttttttgacactttattggtcgctttgttca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA01276:AA01277|AA01276:AA01277:heptosyltransferase III:aspartate ammonia-lyase:->->:865905..866088 184 tgtctgttgttcctatccaaggtttcggcttaaggtccgccggaaaaaattttgcttattctagcccgaccatcgtccattaaaaagcgacaaataaaaaatcagcgccctaatccgttaagacgctgattttgactaaaataaacaagttagttttttgacactttattggtcgctttgttca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA01276:AA01277|AA01276:AA01277:heptosyltransferase III:aspartate ammonia-lyase:->->:865905..866088 184 tgtctgttgttcctatccaaggtttcggcttaaggtccgccggaaaaaattttgcttattctagcccgaccatcgtccattaaaaagcgacaaataaaaaatcagcgccctaatccgttaagacgctgattttgactaaaataaacaagttagttttttgacactttattggtcgctttgttca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgtctgttgttcctatccaaggtttcggcttaaggtccgccggaaaaaattttgcttattctagcccgaccatcgtccattaaaaagcgacaaataaaaaatcagcgccctaatccgttaagacgctgattttgactaaaataaacaagttagttttttgacactttattggtcgctttgttca Predict ORF larger than 30AA ================================================ tgtctgttgttcctatccaaggtttcggcttaaggtccgccggaaaaaattttgcttattctagcccgaccatcgtccattaaaaagcgacaaataaaaaatcagcgccctaatccgttaagacgctgattttgactaaaataaacaagttagttttttgacactttattggtcgctttgttca 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================================================ tgtctgttgttcctatccaaggtttcggcttaaggtccgccggaaaaaattttgcttattctagcccgaccatcgtccattaaaaagcgacaaataaaaaatcagcgccctaatccgttaagacgctgattttgactaaaataaacaagttagttttttgacactttattggtcgctttgttca Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 100 HP_score: -11.4 Tail_Score: -5.72622 Start: 102 End: 129 Full_Region: ttattttagtcaaaa tcagcgtcttaa cgga ttagggcgctga ttttttatttgtcgc .....................................................................................................tcagcgtcttaacggattagggcgctga....................................................... Find igs database================================================ Query_seq: AA01276:AA01277|AA01276:AA01277:heptosyltransferase III:aspartate ammonia-lyase:->->:865905..866088 184 tgtctgttgttcctatccaaggtttcggcttaaggtccgccggaaaaaattttgcttattctagcccgaccatcgtccattaaaaagcgacaaataaaaaatcagcgccctaatccgttaagacgctgattttgactaaaataaacaagttagttttttgacactttattggtcgctttgttca Intra-Species Hit: Count: 1 Min: 1 Max: 184 Len: 184 Subject: aact_AA01276_AA01277|heptosyltransferase III:aspartate ammonia-lyase|POSITIVE:POSITIVE|[865905,866088]|184 HSP 1 e-value: 1.0E-100 bit: 365.0 Len: 184 Query Start:1 Query End:184 Subject Strand: POSITIVE Subject Start: 1 Subject End: 184 tgtctgttgttcctatccaaggtttcggcttaaggtccgccggaaaaaattttgcttattctagcccgaccatcgtccattaaaaagcgacaaataaaaaatcagcgccctaatccgttaagacgctgattttgactaaaataaacaagttagttttttgacactttattggtcgctttgttca tgtctgttgttcctatccaaggtttcggcttaaggtccgccggaaaaaattttgcttattctagcccgaccatcgtccattaaaaagcgacaaataaaaaatcagcgccctaatccgttaagacgctgattttgactaaaataaacaagttagttttttgacactttattggtcgctttgttca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGUCUGUUGUUCCUAUCCAAGGUUUCGGCUUAAGGUCCGCCGGAAAAAAUUUUGCUUAUUCUAGCCCGACCAUCGUCCAUUAAAAAGCGACAAAUAAAAAAUCAGCGCCCUAAUCCGUUAAGACGCUGAUUUUGACUAAAAUAAACAAGUUAGUUUUUUGACACUUUAUUGGUCGCUUUGUUCA .....((((..(((.....)))...))))....((((.((..(((.((.......)).)))..))..))))............((((((((.(((((((((((((((.(.(((....))).).))))))))))...............(((((....)))))...))))).))))))))..... (-41.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAACAAAGCGACCAAUAAAGUGUCAAAAAACUAACUUGUUUAUUUUAGUCAAAAUCAGCGUCUUAACGGAUUAGGGCGCUGAUUUUUUAUUUGUCGCUUUUUAAUGGACGAUGGUCGGGCUAGAAUAAGCAAAAUUUUUUCCGGCGGACCUUAAGCCGAAACCUUGGAUAGGAACAACAGACA .....................((((...........(((((((((((((((.(((((((((((((((....))))))))))))))).....(..(((((.......)).)))..)...))))))))))))))).........((((.........))))...(((.....))).......)))) (-51.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 357 44 1 209 168 aact:AA00537|5end_conserved_hypothetical_protein_367992..368222_POSITIVE 355 69 24 151 109 aact:AA01616|5end_lipoprotein_releasing_system_ATP-binding_protein_1092385..1092615_POSITIVE 344 40 1 193 155 aact:AA00528|5end_conserved_hypothetical_protein_361396..361626_POSITIVE 332 79 33 207 149 aact:AA00527|5end_ATP-dependent_DNA_helicase_359371..359601_POSITIVE 332 79 33 90 32 aact:AA00525|5end_hypothetical_protein_359254..359484_POSITIVE 328 109 66 50 13 aact:AA01807|5end_electron_transport_complex_protein_1216696..1216926_POSITIVE 326 57 11 195 143 aact:AA01314|5end_hypothetical_protein_890021..890251_POSITIVE 321 80 34 91 38 aact:AA00596|5end_uridylate_kinase_407496..407726_POSITIVE 320 75 35 171 122 aact:AA01070|5end_DNA_repair_protein_740920..741150_POSITIVE 315 43 4 51 7 aact:AA00614|5end_ribonuclease_HII_(RNase_HII)_419890..420120_POSITIVE 315 43 1 195 156 aact:AA00211|5end_hypothetical_protein_145955..146185_POSITIVE 314 55 14 216 171 aact:AA00851|5end_carbon_starvation_protein_586760..586990_POSITIVE 311 42 1 59 17 aact:AA01503|5end_glycerol-3-phosphate_dehydrogenase_1010814..1011044_POSITIVE 310 79 34 81 27 aact:AA02076|5end_conserved_hypothetical_protein_1409926..1410156_POSITIVE 310 78 33 58 10 aact:AA01567|5end_conserved_hypothetical_protein_(possible_cell-wall-associated_hydrolase)_1054944..1055174_POSITIVE 310 78 33 58 10 aact:AA01262|5end_hydrolase_859576..859806_POSITIVE 306 44 1 148 83 aact:AA01347|5end_conserved_hypothetical_protein_913209..913439_POSITIVE 304 70 21 212 151 aact:AA02534|5end_zinc_protease_1763912..1764142_POSITIVE 303 41 12 198 162 aact:AA01146|5end_conserved_hypothetical_protein_784433..784663_POSITIVE 303 43 1 184 141 aact:AA00449|5end_conserved_hypothetical_protein_312996..313226_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 355 69 24 133 91 aact:AA01615|3end_lipoprotein_releasing_system_transmembrane_1092447..1092597_POSITIVE 328 109 66 47 10 aact:AA01805|3end_electron_transport_complex_protein_1216773..1216923_POSITIVE 317 75 33 151 113 aact:AA02548|3end_desulfoviridin_gamma_subunit_1775849..1775999_POSITIVE 315 43 4 55 11 aact:AA00613|3end_lipid-A-disaccharide_synthase_419974..420124_POSITIVE 311 42 1 53 11 aact:AA01502|3end_serine_acetyltransferase_1010888..1011038_POSITIVE 306 44 1 120 55 aact:AA01345|3end_conserved_hypothetical_protein_(possible_membrane_protein)_913261..913411_POSITIVE 303 41 12 145 109 aact:AA01145|3end_glycyl-tRNA_synthetase_alpha_subunit_784460..784610_POSITIVE 301 44 2 70 24 aact:AA00923|3end_diaminopimelate_decarboxylase_635320..635470_POSITIVE 300 79 37 54 4 aact:AA02075|3end_conserved_hypothetical_protein_1409979..1410129_POSITIVE 296 51 13 43 5 aact:AA02556|3end_methylglyoxal_synthase_1781007..1781157_POSITIVE 288 108 61 117 65 aact:AA01861|3end_phosphomethylpyrimidine_kinase_1252107..1252257_POSITIVE 286 43 10 143 106 aact:AA00135|3end_S-adenosylmethionine:_2-demethylmenaquinone_methyltransferase_(menaquinone_biosynthesis_protein)_96880..97030_POSITIVE 285 89 41 111 60 aact:AA02545|3end_conserved_hypothetical_protein_1774221..1774371_POSITIVE 285 42 1 54 5 aact:AA01748|3end_thiol:disulfide_interchange_protein_1183810..1183960_POSITIVE 285 127 86 151 113 aact:AA00116|3end_conserved_hypothetical_protein_88207..88357_POSITIVE 280 43 6 137 87 aact:AA01879|3end_glutamyl-tRNA_reductase_1267098..1267248_POSITIVE 277 58 24 116 80 aact:AA01974|3end_conserved_hypothetical_protein_1336411..1336561_POSITIVE 277 89 49 133 95 aact:AA01284|3end_heat_shock_protein_(hsp60)_870294..870444_POSITIVE 277 68 25 143 95 aact:AA00015|3end_malate_dehydrogenase_8333..8483_POSITIVE 276 69 29 144 103 aact:AA02864|3end_glycerol-3-phosphate_transport_protein_2010192..2010342_POSITIVE